ThesisBibliography.bib

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@ARTICLE{1000Genomes,
  author = {{1000 Genomes Project Consortium} and Abecasis, G. R. and Auton,
	A. and Brooks, L. D. and DePristo, M. A. and Durbin, R. M. and Handsaker,
	R. E. and Kang, H. M. and Marth, G. T. and McVean, G. A.},
  title = {An integrated map of genetic variation from 1,092 human genomes},
  journal = {Nature},
  year = {2012},
  volume = {491},
  pages = {56--65},
  number = {7422}
}

@ARTICLE{Abraham2001,
  author = {Abraham, E. and Laterre, P. F. and Garbino, J. and Pingleton, S.
	and Butler, T. and Dugernier, T. and Margolis, B. and Kudsk, K. and
	Zimmerli, W. and Anderson, P. and Reynaert, M. and Lew, D. and Lesslauer,
	W. and Passe, S. and Cooper, P. and Burdeska, A. and Modi, M. and
	Leighton, A. and Salgo, M. and Van der Auwera, P.},
  title = {Lenercept (p55 tumor necrosis factor receptor fusion protein) in
	severe sepsis and early septic shock: a randomized, double-blind,
	placebo-controlled, multicenter phase III trial with 1,342 patients},
  journal = {Crit Care Med},
  year = {2001},
  volume = {29},
  pages = {503--510},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Agirre2006,
  author = {Agirre, X. and Román-Gómez, J. and Vázquez, I. and Jiménez-Velasco,
	A. and Garate, L. and Montiel-Duarte, C. and Artieda, P. and Cordeu,
	L. and Lahortiga, I. and Calasanz, M. J. and Heiniger, A. and Torres,
	A. and Minna, J. D. and Prósper, F.},
  title = {Abnormal methylation of the common PARK2 and PACRG promoter is associated
	with downregulation of gene expression in acute lymphoblastic leukemia
	and chronic myeloid leukemia},
  journal = {Int J Cancer},
  year = {2006},
  volume = {118},
  pages = {1945--1953},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Agrawal2011,
  author = {Agrawal, N. and Frederick, M. J. and Pickering, C. R. and Bettegowda,
	C. and Chang, K. and Li, R. J. and Fakhry, C. and Xie, T. X. and
	Zhang, J. and Wang, J. and Zhang, N. and El-Naggar, A. K. and Jasser,
	S. A. and Weinstein, J. N. and Treviño, L. and Drummond, J. A. and
	Muzny, D. M. and Wu, Y. and Wood, L. D. and Hruban, R. H. and Westra,
	W. H. and Koch, W. M. and Califano, J. A. and Gibbs, R. A. and Sidransky,
	D. and Vogelstein, B. and Velculescu, V. E. and Papadopoulos, N.
	and Wheeler, D. A. and Kinzler, K. W. and Myers, J. N.},
  title = {Exome sequencing of head and neck squamous cell carcinoma reveals
	inactivating mutations in NOTCH1.},
  journal = {Science},
  year = {2011},
  volume = {333},
  pages = {1154--1157},
  number = {6046},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ahn2009,
  author = {Ahn, S. and Cunningham-Rundles, C.},
  title = {Role of B cells in common variable immune deficiency},
  journal = {Expert Rev Clin Immunol},
  year = {2009},
  volume = {5},
  pages = {557--564},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Akira2003,
  author = {Akira, S.},
  title = {Mammalian Toll-like receptors},
  journal = {Curr Opin Immunol},
  year = {2003},
  volume = {15},
  pages = {5--11},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@BOOK{Alcais2004,
  year = {2004},
  author = {Alcais, A. and Abel, L.},
  owner = {edavenp},
  timestamp = {2014.09.23},
  type = {Book}
}

@ARTICLE{Alcais2009,
  author = {Alcais, A. and Abel, L. and Casanova, J. L.},
  title = {Human genetics of infectious diseases: between proof of principle
	and paradigm},
  journal = {J Clin Invest},
  year = {2009},
  volume = {119},
  pages = {2506--2514},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Al-Herz2011,
  author = {Al-Herz, W. and Bousfiha, A. and Casanova, J. L. and Chapel, H. and
	Conley, M. E. and Cunningham-Rundles, C. and Etzioni, A. and Fischer,
	A. and Franco, J. L. and Geha, R. S. and Hammarstrom, L. and Nonoyama,
	S. and Notarangelo, L. D. and Ochs, H. D. and Puck, J. M. and Roifman,
	C. M. and Seger, R. and Tang, M. L.},
  title = {Primary immunodeficiency diseases: an update on the classification
	from the international union of immunological societies expert committee
	for primary immunodeficiency},
  journal = {Front Immunol},
  year = {2011},
  volume = {2},
  pages = {54},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Allison1954,
  author = {Allison, A. C.},
  title = {Protection afforded by sickle-cell trait against subtertian malareal
	infection},
  journal = {Br Med J},
  year = {1954},
  volume = {1},
  pages = {290--294},
  number = {4857},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ameur2009,
  author = {Ameur, Adam and Rada-Iglesias, Alvaro and Komorowski, Jan and Wadelius,
	Claes},
  title = {Identification of candidate regulatory SNPs by combination of transcription-factor-binding
	site prediction, SNP genotyping and haploChIP},
  journal = {Nucl. Acids Res.},
  year = {2009},
  volume = {37},
  pages = {e85-},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Anders2010,
  author = {Anders, S. and Huber, W.},
  title = {Differential expression analysis for sequence count data},
  journal = {Genome Biology},
  year = {2010},
  volume = {11},
  pages = {R106},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Anders2014,
  author = {Anders, S. and Pyl, P. T. and Huber, W.},
  title = {HTSeq--A Python framework to work with high-throughput sequencing
	data},
  journal = {bioRxiv preprint},
  year = {2014},
  doi = {10.1101/002824},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Anderson2010,
  author = {Anderson, C. A. and Pettersson, F. H. and Clarke, G. M. and Cardon,
	L. R. and Morris, A. P. and Zondervan, K. T.},
  title = {Data quality control in genetic case-control association studies},
  journal = {Nat Protoc},
  year = {2010},
  volume = {5},
  pages = {1564--1573},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Andersson2014,
  author = {Andersson, R. and Gebhard, C. and Miguel-Escalada, I. and Hoof, I.
	and Bornholdt, J. and Boyd, M. and Chen, Y. and Zhao, X. and Schmidl,
	C. and Suzuki, T. and Ntini, E. and Arner, E. and Valen, E. and Li,
	K. and Schwarzfischer, L. and Glatz, D. and Raithel, J. and Lilje,
	B. and Rapin, N. and Bagger, F. O. and Jorgensen, M. and Andersen,
	P. R. and Bertin, N. and Rackham, O. and Burroughs, A. M. and Baillie,
	J. K. and Ishizu, Y. and Shimizu, Y. and Furuhata, E. and Maeda,
	S. and Negishi, Y. and Mungall, C. J. and Meehan, T. F. and Lassmann,
	T. and Itoh, M. and Kawaji, H. and Kondo, N. and Kawai, J. and Lennartsson,
	A. and Daub, C. O. and Heutink, P. and Hume, D. A. and Jensen, T.
	H. and Suzuki, H. and Hayashizaki, Y. and Muller, F. and Consortium,
	Fantom and Forrest, A. R. and Carninci, P. and Rehli, M. and Sandelin,
	A.},
  title = {An atlas of active enhancers across human cell types and tissues},
  journal = {Nature},
  year = {2014},
  volume = {507},
  pages = {455--461},
  number = {7493}
}

@ARTICLE{Andrades2011,
  author = {Andrades, M. E. and Morina, A. and Spasic, S. and Spasojevic, I.},
  title = {Bench-to-bedside review: sepsis - from the redox point of view},
  journal = {Crit Care},
  year = {2011},
  volume = {15},
  pages = {230},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Angele2013,
  author = {Angele, M. K. and Pratschke, S. and Hubbard, W. J. and Chaudry, I.
	H.},
  title = {Gender differences in sepsis: Cardiovascular and immunological aspects},
  journal = {Virulence},
  year = {2013},
  volume = {5},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Angulo2013,
  author = {Angulo, I. and Vadas, O. and Garcon, F. and Banham-Hall, E. and Plagnol,
	V. and Leahy, T. R. and Baxendale, H. and Coulter, T. and Curtis,
	J. and Wu, C. and Blake-Palmer, K. and Perisic, O. and Smyth, D.
	and Maes, M. and Fiddler, C. and Juss, J. and Cilliers, D. and Markelj,
	G. and Chandra, A. and Farmer, G. and Kielkowska, A. and Clark, J.
	and Kracker, S. and Debre, M. and Picard, C. and Pellier, I. and
	Jabado, N. and Morris, J. A. and Barcenas-Morales, G. and Fischer,
	A. and Stephens, L. and Hawkins, P. and Barrett, J. C. and Abinun,
	M. and Clatworthy, M. and Durandy, A. and Doffinger, R. and Chilvers,
	E. R. and Cant, A. J. and Kumararatne, D. and Okkenhaug, K. and Williams,
	R. L. and Condliffe, A. and Nejentsev, S.},
  title = {Phosphoinositide 3-kinase delta gene mutation predisposes to respiratory
	infection and airway damage},
  journal = {Science},
  year = {2013},
  volume = {342},
  pages = {866--871},
  number = {6160},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Angus2001,
  author = {Angus, D. C. and Linde-Zwirble, W. T. and Lidicker, J. and Clermont,
	G. and Carcillo, J. and Pinsky, M. R.},
  title = {Epidemiology of severe sepsis in the United States: analysis of incidence,
	outcome, and associated costs of care},
  journal = {Crit Care Med},
  year = {2001},
  volume = {29},
  pages = {1303--1310},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Annane2009,
  author = {Annane, D.},
  title = {Improving clinical trials in the critically ill: unique challenge--sepsis},
  journal = {Crit Care Med},
  year = {2009},
  volume = {37},
  pages = {S117--128},
  number = {1 Suppl},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Annane2009a,
  author = {Annane, D. and Bellissant, E. and Bollaert, P. E. and Briegel, J.
	and Confalonieri, M. and De Gaudio, R. and Keh, D. and Kupfer, Y.
	and Oppert, M. and Meduri, G. U.},
  title = {Corticosteroids in the treatment of severe sepsis and septic shock
	in adults: a systematic review},
  journal = {JAMA},
  year = {2009},
  volume = {301},
  pages = {2362--2375},
  number = {22}
}

@ARTICLE{Antrobus2014,
  author = {Antrobus, R. D. and Berthoud, T. K. and Mullarkey, C. E. and Hoschler,
	K. and Coughlan, L. and Zambon, M. and Hill, A. V. and Gilbert, S.
	C.},
  title = {Coadministration of Seasonal Influenza Vaccine and MVA-NP+M1 Simultaneously
	Achieves Potent Humoral and Cell-Mediated Responses},
  journal = {Mol Ther},
  year = {2014},
  volume = {22},
  pages = {233--238},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Antrobus2012,
  author = {Antrobus, R. D. and Lillie, P. J. and Berthoud, T. K. and Spencer,
	A. J. and McLaren, J. E. and Ladell, K. and Lambe, T. and Milicic,
	A. and Price, D. A. and Hill, A. V. and Gilbert, S. C.},
  title = {A T cell-inducing influenza vaccine for the elderly: safety and immunogenicity
	of MVA-NP+M1 in adults aged over 50 years},
  journal = {PLoS One},
  year = {2012},
  volume = {7},
  pages = {e48322},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Aparicio2004,
  author = {Aparicio, O. and Geisberg, J. V. and Struhl, K.},
  title = {Chromatin immunoprecipitation for determining the association of
	proteins with specific genomic sequences in vivo},
  journal = {Curr Protoc Cell Biol},
  year = {2004},
  volume = {Chapter 17},
  pages = {Unit 17 17},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Arish2006,
  author = {Arish, N. and Eldor, R. and Fellig, Y. and Bogot, N. and Laxer, U.
	and Izhar, U. and Rokach, A.},
  title = {Lymphocytic interstitial pneumonia associated with common variable
	immunodeficiency resolved with intravenous immunoglobulins.},
  journal = {Thorax},
  year = {2006},
  volume = {61},
  pages = {1096--1097},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Atkinson2001,
  author = {Atkinson, TP and Schäffer, AA and Grimbacher, B and Schroeder, HW
	Jr and Woellner, C and Zerbe, CS and Puck, JM},
  title = {An immune defect causing dominant chronic mucocutaneous candidiasis
	and thyroid disease maps to chromosome 2p in a single family.},
  journal = {Am J Hum Genet},
  year = {2001},
  volume = {69},
  pages = {791--803},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bacchelli2007,
  author = {Bacchelli, C. and Buckridge, S. and Thrasher, A. J. and Gaspar, H.
	B.},
  title = {Translational mini-review series on immunodeficiency: molecular defects
	in common variable immunodeficiency},
  journal = {Clin Exp Immunol},
  year = {2007},
  volume = {149},
  pages = {401--409},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Baker1997,
  author = {Baker, A and Cotten, M},
  title = {Delivery of bacterial artificial chromosomes into mammalian cells
	with psoralen-inactivated adenovirus carrier},
  journal = {Nucl. Acids Res.},
  year = {1997},
  volume = {25},
  pages = {1950--1956},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bamshad2011,
  author = {Bamshad, M. J. and Ng, S. B. and Bigham, A. W. and Tabor, H. K. and
	Emond, M. J. and Nickerson, D. A. and Shendure, J.},
  title = {Exome sequencing as a tool for Mendelian disease gene discovery},
  journal = {Nat Rev Genet},
  year = {2011},
  volume = {12},
  pages = {745--755},
  number = {11},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Ban2008,
  author = {Ban, L and Zhang, J and Wang, L and Kuhtreiber, W and Burger, D and
	Faustman, D},
  title = {Selective death of autoreactive T cells in human diabetes by TNF
	or TNF receptor 2 agonism.},
  journal = {Proceedings of the National Academy of Sciences of the United States
	of America},
  year = {2008},
  volume = {105},
  pages = {13644--13649},
  number = {36},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Barbosa2011,
  author = {Barbosa, R. R. and Silva, S. P. and Silva, S. L. and Melo, A. C.
	and Pedro, E. and Barbosa, M. P. and Pereira-Santos, M. C. and Victorino,
	R. M. and Sousa, A. E.},
  title = {Primary B-cell deficiencies reveal a link between human IL-17-producing
	CD4 T-cell homeostasis and B-cell differentiation},
  journal = {PLoS One},
  year = {2011},
  volume = {6},
  pages = {e22848},
  number = {8}
}

@ARTICLE{Barrett2009,
  author = {Barrett, J. C. and Clayton, D. G. and Concannon, P. and Akolkar,
	B. and Cooper, J. D. and Erlich, H. A. and Julier, C. and Morahan,
	G. and Nerup, J. and Nierras, C. and Plagnol, V. and Pociot, F. and
	Schuilenburg, H. and Smyth, D. J. and Stevens, H. and Todd, J. A.
	and Walker, N. M. and Rich, S. S. and Consortium, Type 1 Diabetes
	Genetics},
  title = {Genome-wide association study and meta-analysis find that over 40
	loci affect risk of type 1 diabetes.},
  journal = {Nat Genet},
  year = {2009},
  volume = {41},
  pages = {703--707},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Barrett2005,
  author = {Barrett, J. C. and Fry, B. and Maller, J. and Daly, M. J.},
  title = {Haploview: analysis and visualization of LD and haplotype maps},
  journal = {Bioinformatics},
  year = {2005},
  volume = {21},
  pages = {263--265},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Barzon2013,
  author = {Barzon, L. and Lavezzo, E. and Costanzi, G. and Franchin, E. and
	Toppo, S. and Palu, G.},
  title = {Next-generation sequencing technologies in diagnostic virology},
  journal = {J Clin Virol},
  year = {2013},
  volume = {58},
  pages = {346--350},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@INPROCEEDINGS{Bastian2009,
  author = {Bastian, M. and Heymann, S. and Jacomy, M.},
  title = {Gephi: An Open Source Software for Exploring and Manipulating Networks},
  booktitle = {International AAAI Conference on Weblogs and Social Media},
  year = {2009},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bateman2012,
  author = {Bateman, E. A. and Ayers, L. and Sadler, R. and Lucas, M. and Roberts,
	C. and Woods, A. and Packwood, K. and Burden, J. and Harrison, D.
	and Kaenzig, N. and Lee, M. and Chapel, H. M. and Ferry, B. L.},
  title = {T cell phenotypes in patients with common variable immunodeficiency
	disorders: associations with clinical phenotypes in comparison with
	other groups with recurrent infections},
  journal = {Clin Exp Immunol},
  year = {2012},
  volume = {170},
  pages = {202-211},
  number = {2}
}

@ARTICLE{Bates2002,
  author = {Bates, EE and Fridman, WH and Mueller, CG},
  title = {The ADAMDEC1 (decysin) gene structure: evolution by duplication in
	a metalloprotease gene cluster on chromosome 8p12.},
  journal = {Immunogenetics},
  year = {2002},
  volume = {54},
  pages = {96--105},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bell2004,
  author = {Bell, Elaine},
  title = {Mediating endotoxin tolerance},
  journal = {Nat Rev Immunol},
  year = {2004},
  volume = {4},
  pages = {750--750},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Beltinger1996,
  author = {Beltinger, C. P. and White, P. S. and Maris, J. M. and Sulman, E.
	P. and Jensen, S. J. and LePaslier, D. and Stallard, B. J. and Goeddel,
	D. V. and de Sauvage, F. J. and Brodeur, G. M.},
  title = {Physical mapping and genomic structure of the human TNFR2 gene},
  journal = {Genomics},
  year = {1996},
  volume = {35},
  pages = {94--100},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bemelmans1993,
  author = {Bemelmans, MH and Gouma, DJ and Buurman, WA},
  title = {Influence of nephrectomy on tumor necrosis factor clearance in a
	murine model},
  journal = {The Journal of Immunology},
  year = {1993},
  volume = {150},
  pages = {2007--2017},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bentley2008,
  author = {Bentley, D. R. and Balasubramanian, S. and Swerdlow, H. P. and Smith,
	G. P. and Milton, J. and Brown, C. G. and Hall, K. P. and Evers,
	D. J. and Barnes, C. L. and Bignell, H. R. and Boutell, J. M. and
	Bryant, J. and Carter, R. J. and Keira Cheetham, R. and Cox, A. J.
	and Ellis, D. J. and Flatbush, M. R. and Gormley, N. A. and Humphray,
	S. J. and Irving, L. J. and Karbelashvili, M. S. and Kirk, S. M.
	and Li, H. and Liu, X. and Maisinger, K. S. and Murray, L. J. and
	Obradovic, B. and Ost, T. and Parkinson, M. L. and Pratt, M. R. and
	Rasolonjatovo, I. M. and Reed, M. T. and Rigatti, R. and Rodighiero,
	C. and Ross, M. T. and Sabot, A. and Sankar, S. V. and Scally, A.
	and Schroth, G. P. and Smith, M. E. and Smith, V. P. and Spiridou,
	A. and Torrance, P. E. and Tzonev, S. S. and Vermaas, E. H. and Walter,
	K. and Wu, X. and Zhang, L. and Alam, M. D. and Anastasi, C. and
	Aniebo, I. C. and Bailey, D. M. and Bancarz, I. R. and Banerjee,
	S. and Barbour, S. G. and Baybayan, P. A. and Benoit, V. A. and Benson,
	K. F. and Bevis, C. and Black, P. J. and Boodhun, A. and Brennan,
	J. S. and Bridgham, J. A. and Brown, R. C. and Brown, A. A. and Buermann,
	D. H. and Bundu, A. A. and Burrows, J. C. and Carter, N. P. and Castillo,
	N. and Chiara E Catenazzi, M. and Chang, S. and Neil Cooley, R. and
	Crake, N. R. and Dada, O. O. and Diakoumakos, K. D. and Dominguez-Fernandez,
	B. and Earnshaw, D. J. and Egbujor, U. C. and Elmore, D. W. and Etchin,
	S. S. and Ewan, M. R. and Fedurco, M. and Fraser, L. J. and Fuentes
	Fajardo, K. V. and Scott Furey, W. and George, D. and Gietzen, K.
	J. and Goddard, C. P. and Golda, G. S. and Granieri, P. A. and Green,
	D. E. and Gustafson, D. L. and Hansen, N. F. and Harnish, K. and
	Haudenschild, C. D. and Heyer, N. I. and Hims, M. M. and Ho, J. T.
	and Horgan, A. M. and others },
  title = {Accurate whole human genome sequencing using reversible terminator
	chemistry.},
  journal = {Nature},
  year = {2008},
  volume = {456},
  pages = {53--59},
  number = {7218},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Berg1995,
  author = {Berg, D and Kuhn, R and Rajewsky, K and Muller, W and Menon, S and
	Davidson, N and Grunig, G and Rennick, D},
  title = {Interleukin-10 is a central regulator of the response to LPS in murine
	models of endotoxic shock and the Shwartzman reaction but not endotoxin
	tolerance.},
  journal = {J Clin Invest},
  year = {1995},
  volume = {96},
  pages = {2339--2347},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bernard2001,
  author = {Bernard, G. R. and Vincent, J. L. and Laterre, P. F. and LaRosa,
	S. P. and Dhainaut, J. F. and Lopez-Rodriguez, A. and Steingrub,
	J. S. and Garber, G. E. and Helterbrand, J. D. and Ely, E. W. and
	Fisher, C. J., Jr. and Recombinant human protein, C. Worldwide Evaluation
	in Severe Sepsis study group},
  title = {Efficacy and safety of recombinant human activated protein C for
	severe sepsis},
  journal = {N Engl J Med},
  year = {2001},
  volume = {344},
  pages = {699--709},
  number = {10}
}

@ARTICLE{Berthoud2011,
  author = {Berthoud, T. K. and Hamill, M. and Lillie, P. J. and Hwenda, L. and
	Collins, K. A. and Ewer, K. J. and Milicic, A. and Poyntz, H. C.
	and Lambe, T. and Fletcher, H. A. and Hill, A. V. and Gilbert, S.
	C.},
  title = {Potent CD8+ T-cell immunogenicity in humans of a novel heterosubtypic
	influenza A vaccine, MVA-NP+M1},
  journal = {Clin Infect Dis},
  year = {2011},
  volume = {52},
  pages = {1--7},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Beutler2004,
  author = {Beutler, B},
  title = {SHIP, TGF-β, and Endotoxin Tolerance},
  journal = {Immunity},
  year = {2004},
  volume = {21},
  pages = {134--135},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Beutler2003,
  author = {Beutler, B. and Du, X. and Hoebe, K.},
  title = {From phenomenon to phenotype and from phenotype to gene: forward
	genetics and the problem of sepsis.},
  journal = {J Infect Dis},
  year = {2003},
  volume = {187 Suppl 2},
  pages = {S321--326},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bianchi2007,
  author = {Bianchi, M. E.},
  title = {DAMPs, {PAM}Ps and alarmins: all we need to know about danger},
  journal = {J Leukoc Biol},
  year = {2007},
  volume = {81},
  pages = {1--5},
  number = {1}
}

@ARTICLE{Bick2011,
  author = {Bick, D. and Dimmock, D.},
  title = {Whole exome and whole genome sequencing},
  journal = {Curr Opin Pediatr},
  year = {2011},
  volume = {23},
  pages = {594--600},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{BilgA�var2010,
  author = {Bilgüvar, K. and Oztürk, A. K. and Louvi, A. and Kwan, K. Y. and
	Choi, M. and Tatli, B. and Yalnizoğlu, D. and Tüysüz, B. and Cağlayan,
	A. O. and Gökben, S. and Kaymakçalan, H. and Barak, T. and Bakircioğlu,
	M. and Yasuno, K. and Ho, W. and Sanders, S. and Zhu, Y. and Yilmaz,
	S. and Dinçer, A. and Johnson, M. H. and Bronen, R. A. and Koçer,
	N. and Per, H. and Mane, S. and Pamir, M. N. and Yalçinkaya, C.
	and Kumandaş, S. and Topçu, M. and Ozmen, M. and Sestan, N. and
	Lifton, R. P. and State, M. W. and Günel, M.},
  title = {Whole-exome sequencing identifies recessive WDR62 mutations in severe
	brain malformations.},
  journal = {Nature},
  year = {2010},
  volume = {467},
  pages = {207--210},
  number = {7312},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Billerbeck2010,
  author = {Billerbeck, E. and Kang, Y. H. and Walker, L. and Lockstone, H. and
	Grafmueller, S. and Fleming, V. and Flint, J. and Willberg, C. B.
	and Bengsch, B. and Seigel, B. and Ramamurthy, N. and Zitzmann, N.
	and Barnes, E. J. and Thevanayagam, J. and Bhagwanani, A. and Leslie,
	A. and Oo, Y. H. and Kollnberger, S. and Bowness, P. and Drognitz,
	O. and Adams, D. H. and Blum, H. E. and Thimme, R. and Klenerman,
	P.},
  title = {Analysis of CD161 expression on human CD8+ T cells defines a distinct
	functional subset with tissue-homing properties},
  journal = {Proc Natl Acad Sci U S A},
  year = {2010},
  volume = {107},
  pages = {3006--3011},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Biswas2009,
  author = {Biswas, SK and Lopez-Collazo, E},
  title = {Endotoxin tolerance: new mechanisms, molecules and clinical significance.},
  journal = {Trends Immunol},
  year = {2009},
  volume = {30},
  pages = {475--487},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bodmer2008,
  author = {Bodmer, W. and Bonilla, C.},
  title = {Common and rare variants in multifactorial susceptibility to common
	diseases.},
  journal = {Nat Genet},
  year = {2008},
  volume = {40},
  pages = {695--701},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bohgaki2011,
  author = {Bohgaki, T. and Bohgaki, M. and Cardoso, R. and Panier, S. and Zeegers,
	D. and Li, L. and Stewart, G. S. and Sanchez, O. and Hande, M. P.
	and Durocher, D. and Hakem, A. and Hakem, R.},
  title = {Genomic instability, defective spermatogenesis, immunodeficiency,
	and cancer in a mouse model of the RIDDLE syndrome},
  journal = {PLoS Genet},
  year = {2011},
  volume = {7},
  pages = {e1001381},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bone1992,
  author = {Bone, RC and Balk, RA and Cerra, FB and Dellinger, RP and Fein, AM
	and Knaus, WA and Schein, RM and Sibbald, WJ},
  title = {Definitions for sepsis and organ failure and guidelines for the use
	of innovative therapies in sepsis. The ACCP/SCCM Consensus Conference
	Committee. American College of Chest Physicians/Society of Critical
	Care Medicine},
  journal = {Chest},
  year = {1992},
  volume = {101},
  pages = {1644--1655},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bortz2011,
  author = {Bortz, E. and Garc\'{i}a-Sastre, A.},
  title = {Predicting the pathogenesis of influenza from genomic response: a
	step toward early diagnosis},
  journal = {Genome Med},
  year = {2011},
  volume = {3},
  pages = {67},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bosmann2013,
  author = {Bosmann, M. and Ward, P. A.},
  title = {The inflammatory response in sepsis},
  journal = {Trends Immunol},
  year = {2013},
  volume = {34},
  pages = {129--136},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bousfiha2013,
  author = {Bousfiha, A. A. and Jeddane, L. and Ailal, F. and Al Herz, W. and
	Conley, M. E. and Cunningham-Rundles, C. and Etzioni, A. and Fischer,
	A. and Franco, J. L. and Geha, R. S. and Hammarstrom, L. and Nonoyama,
	S. and Ochs, H. D. and Roifman, C. M. and Seger, R. and Tang, M.
	L. and Puck, J. M. and Chapel, H. and Notarangelo, L. D. and Casanova,
	J. L.},
  title = {A phenotypic approach for IUIS PID classification and diagnosis:
	guidelines for clinicians at the bedside},
  journal = {J Clin Immunol},
  year = {2013},
  volume = {33},
  pages = {1078--1087},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bouwmeester2004,
  author = {Bouwmeester, T and Bauch, A and Ruffner, H and Angrand, PO and Bergamini,
	G and Croughton, K and Cruciat, C and Eberhard, D and Gagneur, J
	and Ghidelli, S and Hopf, C and Huhse, B and Mangano, R and Michon,
	AM and Schirle, M and Schlegl, J and Schwab, M and Stein, MA and
	Bauer, A and Casari, G and Drewes, G and Gavin, AC and Jackson, DB
	and Joberty, G and Neubauer, G and Rick, J and Kuster, B and Superti-Furga,
	G},
  title = {A physical and functional map of the human TNF-alpha/NF-kappa B signal
	transduction pathway.},
  journal = {Nat Cell Biol},
  year = {2004},
  volume = {6},
  pages = {97--105},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Boyle2012,
  author = {Boyle, A. P. and Hong, E. L. and Hariharan, M. and Cheng, Y. and
	Schaub, M. A. and Kasowski, M. and Karczewski, K. J. and Park, J.
	and Hitz, B. C. and Weng, S. and Cherry, J. M. and Snyder, M.},
  title = {Annotation of functional variation in personal genomes using RegulomeDB},
  journal = {Genome Research},
  year = {2012},
  volume = {22},
  pages = {1790--1797},
  number = {9}
}

@ARTICLE{Bridges2002,
  author = {Bridges, LC and Tani, PH and Hanson, KR and Roberts, CM and Judkins,
	MB and Bowditch, RD},
  title = {The lymphocyte metalloprotease MDC-L (ADAM 28) is a ligand for the
	integrin alpha4beta1.},
  journal = {J Biol Chem},
  year = {2002},
  volume = {277},
  pages = {3784--3792},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Brun-Buisson1995,
  author = {Brun-Buisson, C. and Doyon, F. and Carlet, J. and Dellamonica, P.
	and Gouin, F. and Lepoutre, A. and Mercier, J. C. and Offenstadt,
	G. and Régnier, B.},
  title = {Incidence, risk factors, and outcome of severe sepsis and septic
	shock in adults. A multicenter prospective study in intensive care
	units. French ICU Group for Severe Sepsis},
  journal = {JAMA},
  year = {1995},
  volume = {274},
  pages = {968--974},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Bucasas2011,
  author = {Bucasas, K. L. and Franco, L. M. and Shaw, C. A. and Bray, M. S.
	and Wells, J. M. and Nino, D. and Arden, N. and Quarles, J. M. and
	Couch, R. B. and Belmont, J. W.},
  title = {Early patterns of gene expression correlate with the humoral immune
	response to influenza vaccination in humans},
  journal = {J Infect Dis},
  year = {2011},
  volume = {203},
  pages = {921--929},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Burton2007,
  author = {Burton, P and al, et},
  title = {Association scan of 14,500 nonsynonymous SNPs in four diseases identifies
	autoimmunity variants},
  journal = {Nat Genet},
  year = {2007},
  volume = {39},
  pages = {1329--1337},
  number = {11},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Byun2010,
  author = {Byun, M and Abhyankar, A and Lelarge, V and Plancoulaine, S and Palanduz,
	A and Telhan, L and Boisson, B and Picard, C and Dewell, S and Zhao,
	C and Jouanguy, E and Feske, S and Abel, L and Casanova, JL},
  title = {Whole-exome sequencing-based discovery of STIM1 deficiency in a child
	with fatal classic Kaposi sarcoma.},
  journal = {J Exp Med},
  year = {2010},
volume={207},
issue={11},
pages={2307--2312}
}

@ARTICLE{Calfee2010,
  author = {Calfee, C. S. and Thompson, B. T. and Parsons, P. E. and Ware, L.
	B. and Matthay, M. A. and Wong, H. R.},
  title = {Plasma interleukin-8 is not an effective risk stratification tool
	for adults with vasopressor-dependent septic shock},
  journal = {Crit Care Med},
  year = {2010},
  volume = {38},
  pages = {1436--1441},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Campbell2011,
  author = {Campbell, J. D. and Spira, A. and Lenburg, M. E.},
  title = {Applying gene expression microarrays to pulmonary disease},
  journal = {Respirology},
  year = {2011},
  volume = {16},
  pages = {407--418},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Carlet2008,
  author = {Carlet, J. and Cohen, J. and Calandra, T. and Opal, S. M. and Masur,
	H.},
  title = {Sepsis: time to reconsider the concept},
  journal = {Crit Care Med},
  year = {2008},
  volume = {36},
  pages = {964--966},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Carrat2008,
  author = {Carrat, F. and Vergu, E. and Ferguson, N. M. and Lemaitre, M. and
	Cauchemez, S. and Leach, S. and Valleron, A. J.},
  title = {Time lines of infection and disease in human influenza: a review
	of volunteer challenge studies},
  journal = {Am J Epidemiol},
  year = {2008},
  volume = {167},
  pages = {775--785},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cashion2011,
  author = {Cashion, A. K. and Umberger, R. A. and Goodwin, S. B. and Sutter,
	T. R.},
  title = {Collection and storage of human blood and adipose for genomic analysis
	of clinical samples},
  journal = {Res Nurs Health},
  year = {2011},
  volume = {34},
  pages = {408-18},
  number = {5}
}

@ARTICLE{Castigli2005,
  author = {Castigli, E. and Wilson, S. A. and Garibyan, L. and Rachid, R. and
	Bonilla, F. and Schneider, L. and Geha, R. S.},
  title = {TACI is mutant in common variable immunodeficiency and IgA deficiency},
  journal = {Nat Genet},
  year = {2005},
  volume = {37},
  pages = {829--834},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cavaillon2006,
  author = {Cavaillon, JM and Adib-Conquy, M},
  title = {Bench-to-bedside review: endotoxin tolerance as a model of leukocyte
	reprogramming in sepsis.},
  journal = {Crit Care},
  year = {2006},
  volume = {10},
  pages = {233},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Chan2014,
  author = {Chan, C. J. and Martinet, L. and Gilfillan, S. and Souza-Fonseca-Guimaraes,
	F. and Chow, M. T. and Town, L. and Ritchie, D. S. and Colonna, M.
	and Andrews, D. M. and Smyth, M. J.},
  title = {The receptors CD96 and CD226 oppose each other in the regulation
	of natural killer cell functions},
  journal = {Nat Immunol},
  year = {2014},
  volume = {15},
  pages = {431-438},
  number = {5}
}

@ARTICLE{Chapel2009,
  author = {Chapel, H. and Cunningham-Rundles, C.},
  title = {Update in understanding common variable immunodeficiency disorders
	(CVIDs) and the management of patients with these conditions},
  journal = {Br J Haematol},
  year = {2009},
  volume = {145},
  pages = {709--727},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Chapel2008,
  author = {Chapel, H. and Lucas, M. and Lee, M. and Bjorkander, J. and Webster,
	D. and Grimbacher, B. and Fieschi, C. and Thon, V. and Abedi, M.
	R. and Hammarstrom, L.},
  title = {Common variable immunodeficiency disorders: division into distinct
	clinical phenotypes},
  journal = {Blood},
  year = {2008},
  volume = {112},
  pages = {277--286},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Chapel2012,
  author = {Chapel, H. and Lucas, M. and Patel, S. and Lee, M. and Cunningham-Rundles,
	C. and Resnick, E. and Gerard, L. and Oksenhendler, E.},
  title = {Confirmation and improvement of criteria for clinical phenotyping
	in common variable immunodeficiency disorders in replicate cohorts},
  journal = {J Allergy Clin Immunol},
  year = {2012},
  volume = {130},
  pages = {1197--1198},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Chapman2012,
  author = {Chapman, S. J. and Hill, A. V.},
  title = {Human genetic susceptibility to infectious disease},
  journal = {Nat Rev Genet},
  year = {2012},
  volume = {13},
  pages = {175--188},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Cheung2003,
  author = {Cheung, V. G. and Conlin, L. K. and Weber, T. M. and Arcaro, M. and
	Jen, K. Y. and Morley, M. and Spielman, R. S.},
  title = {Natural variation in human gene expression assessed in lymphoblastoid
	cells},
  journal = {Nat Genet},
  year = {2003},
  volume = {33},
  pages = {422--425},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Cheung2009,
  author = {Cheung, V. G. and Spielman, R. S.},
  title = {Genetics of human gene expression: mapping {DNA} variants that influence
	gene expression},
  journal = {Nat Rev Genet},
  year = {2009},
  volume = {10},
  pages = {595--604},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Cheung2002,
  author = {Cheung, V. G. and Spielman, R. S.},
  title = {The genetics of variation in gene expression},
  journal = {Nat Genet},
  year = {2002},
  volume = {32 Suppl},
  pages = {522--525},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Choi2007,
  author = {Choi, J. K. and Kim, S. C.},
  title = {Environmental effects on gene expression phenotype have regional
	biases in the human genome},
  journal = {Genetics},
  year = {2007},
  volume = {175},
  pages = {1607-13},
  number = {4}
}

@ARTICLE{Chou2012,
  author = {Chou, J. and Ohsumi, T. K. and Geha, R. S.},
  title = {Use of whole exome and genome sequencing in the identification of
	genetic causes of primary immunodeficiencies},
  journal = {Curr Opin Allergy Clin Immunol},
  year = {2012},
  volume = {12},
  pages = {623-8},
  number = {6}
}

@ARTICLE{Chung2011,
  author = {Chung, L. P. and Waterer, G. W.},
  title = {Genetic predisposition to respiratory infection and sepsis},
  journal = {Crit Rev Clin Lab Sci},
  year = {2011},
  volume = {48},
  pages = {250-68},
  number = {5-6}
}

@ARTICLE{Cirulli2010,
  author = {Cirulli, E. T. and Goldstein, D. B.},
  title = {Uncovering the roles of rare variants in common disease through whole-genome
	sequencing},
  journal = {Nat Rev Genet},
  year = {2010},
  volume = {11},
  pages = {415--425},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cobb2005,
  author = {Cobb, J. P. and Mindrinos, M. N. and Miller-Graziano, C. and Calvano,
	S. E. and Baker, H. V. and Xiao, W. and Laudanski, K. and Brownstein,
	B. H. and Elson, C. M. and Hayden, D. L. and Herndon, D. N. and Lowry,
	S. F. and Maier, R. V. and Schoenfeld, D. A. and Moldawer, L. L.
	and Davis, R. W. and Tompkins, R. G. and Baker, H. V. and Bankey,
	P. and Billiar, T. and Brownstein, B. H. and Calvano, S. E. and Camp,
	D. and Chaudry, I. and Cobb, J. P. and Davis, R. W. and Elson, C.
	M. and Freeman, B. and Gamelli, R. and Gibran, N. and Harbrecht,
	B. and Hayden, D. L. and Heagy, W. and Heimbach, D. and Herndon,
	D. N. and Horton, J. and Hunt, J. and Laudanski, K. and Lederer,
	J. and Lowry, S. F. and Maier, R. V. and Mannick, J. and McKinley,
	B. and Miller-Graziano, C. and Mindrinos, M. N. and Minei, J. and
	Moldawer, L. L. and Moore, E. and Moore, F. and Munford, R. and Nathens,
	A. and O'Keefe, G. and Purdue, G. and Rahme, L. and Remick, D. and
	Sailors, M. and Schoenfeld, D. A. and Shapiro, M. and Silver, G.
	and Smith, R. and Stephanopoulos, G. and Stormo, G. and Tompkins,
	R. G. and Toner, M. and Warren, S. and West, M. and Wolfe, S. and
	Xiao, W. and Young, V. and Inflammation and Host Response to Injury
	Large-Scale Collaborative Research, Program},
  title = {Application of genome-wide expression analysis to human health and
	disease},
  journal = {Proc Natl Acad Sci U S A},
  year = {2005},
  volume = {102},
  pages = {4801-6},
  number = {13}
}

@ARTICLE{Cohen2012,
  author = {Cohen, J. and Opal, S. and Calandra, T.},
  title = {Sepsis studies need new direction},
  journal = {Lancet Infect Dis},
  year = {2012},
  volume = {12},
  pages = {503--505},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@MANUAL{Conesa,
  title = {maSigPro: Significant Gene Expression Profile Differences in Time
	Course Microarray Data},
  author = {Conesa, A. and Nueda, M. J.},
  year = {R package version 1.28.0},
  owner = {edavenp},
  timestamp = {2014.09.23},
  url = {http://bioinfo.cipf.es/}
}

@ARTICLE{Conley1999,
  author = {Conley, M. E. and Notarangelo, L. D. and Etzioni, A.},
  title = {Diagnostic criteria for primary immunodeficiencies. Representing
	PAGID (Pan-American Group for Immunodeficiency) and ESID (European
	Society for Immunodeficiencies)},
  journal = {Clin Immunol},
  year = {1999},
  volume = {93},
  pages = {190--197},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Consortium2005,
  author = {Consortium, The International HapMap},
  title = {A haplotype map of the human genome},
  journal = {Nature},
  year = {2005},
  volume = {437},
  pages = {1299--1320},
  number = {7063},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cookson2009,
  author = {Cookson, W. and Liang, L. and Abecasis, G. and Moffatt, M. and Lathrop,
	M.},
  title = {Mapping complex disease traits with global gene expression},
  journal = {Nat Rev Genet},
  year = {2009},
  volume = {10},
  pages = {184--194},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cooper2011,
  author = {Cooper, G. M. and Shendure, J.},
  title = {Needles in stacks of needles: finding disease-causal variants in
	a wealth of genomic data},
  journal = {Nat Rev Genet},
  year = {2011},
  volume = {12},
  pages = {628--640},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cooper2008,
  author = {Cooper, J. D. and Smyth, D. J. and Smiles, A. M. and Plagnol, V.
	and Walker, N. M. and Allen, J. E. and Downes, K. and Barrett, J.
	C. and Healy, B. C. and Mychaleckyj, J. C. and Warram, J. H. and
	Todd, J. A.},
  title = {Meta-analysis of genome-wide association study data identifies additional
	type 1 diabetes risk loci.},
  journal = {Nat Genet},
  year = {2008},
  volume = {40},
  pages = {1399--1401},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}


@BOOK{Cooper2000,
  title = {The Cell: A Molecular Approach},
  publisher = {Sinauer Associates},
  year = {2000},
  author = {Cooper, G. M.},
  address = {Sunderland}
}

@ARTICLE{Corey2007,
  author = {Corey, S. J. and Minden, M. D. and Barber, D. L. and Kantarjian,
	H. and Wang, J. C. and Schimmer, A. D.},
  title = {Myelodysplastic syndromes: the complexity of stem-cell diseases},
  journal = {Nat Rev Cancer},
  year = {2007},
  volume = {7},
  pages = {118--129},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cornell2010,
  author = {Cornell, T. T. and Wynn, J. and Shanley, T. P. and Wheeler, D. S.
	and Wong, H. R.},
  title = {Mechanisms and regulation of the gene-expression response to sepsis},
  journal = {Pediatrics},
  year = {2010},
  volume = {125},
  pages = {1248--1258},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cowles2002,
  author = {Cowles, C. R. and Hirschhorn, J. N. and Altshuler, D. and Lander,
	E. S.},
  title = {Detection of regulatory variation in mouse genes},
  journal = {Nat Genet},
  year = {2002},
  volume = {32},
  pages = {432--437},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cox1999,
  author = {Cox, N. J. and Subbarao, K.},
  title = {Influenza},
  journal = {Lancet},
  year = {1999},
  volume = {354},
  pages = {1277--1282},
  number = {9186},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Croft2010,
  author = {Croft, M.},
  title = {Control of immunity by the TNFR-related molecule OX40 (CD134)},
  journal = {Annu Rev Immunol},
  year = {2010},
  volume = {28},
  pages = {57-78}
}

@MANUAL{GeneRave,
  title = {GeneRave: Sparse response modelling for high dimensional data},
  author = {{CSIRO Bioinformatics}},
  year = {R package version 3.0.8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cuenca2013,
  author = {Cuenca, A. G. and Gentile, L. F. and Lopez, M. C. and Ungaro, R.
	and Liu, H. and Xiao, W. and Seok, J. and Mindrinos, M. N. and Ang,
	D. and Baslanti, T. O. and Bihorac, A. and Efron, P. A. and Cuschieri,
	J. and Warren, H. S. and Tompkins, R. G. and Maier, R. V. and Baker,
	H. V. and Moldawer, L. L. and Inflammation and Host Response to Injury
	Collaborative Research, Program},
  title = {Development of a genomic metric that can be rapidly used to predict
	clinical outcome in severely injured trauma patients},
  journal = {Crit Care Med},
  year = {2013},
  volume = {41},
  pages = {1175--1185},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cunningham-Rundles2010,
  author = {Cunningham-Rundles, C.},
  title = {How I treat common variable immune deficiency},
  journal = {Blood},
  year = {2010},
  volume = {116},
  pages = {7--15},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cunningham-Rundles1999,
  author = {Cunningham-Rundles, C. and Bodian, C.},
  title = {Common variable immunodeficiency: clinical and immunological features
	of 248 patients},
  journal = {Clin Immunol},
  year = {1999},
  volume = {92},
  pages = {34--48},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cunningham-Rundles2007,
  author = {Cunningham-Rundles, C. and Knight, A. K.},
  title = {Common variable immune deficiency: reviews, continued puzzles, and
	a new registry},
  journal = {Immunol Res},
  year = {2007},
  volume = {38},
  pages = {78--86},
  number = {1-3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Cvijanovich2008,
  author = {Cvijanovich, N. and Shanley, T. P. and Lin, R. and Allen, G. L. and
	Thomas, N. J. and Checchia, P. and Anas, N. and Freishtat, R. J.
	and Monaco, M. and Odoms, K. and Sakthivel, B. and Wong, H. R. and
	Investigators, Genomics of Pediatric SIRS/Septic Shock},
  title = {Validating the genomic signature of pediatric septic shock.},
  journal = {Physiol Genomics},
  year = {2008},
  volume = {34},
  pages = {127--134},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Danai2005,
  author = {Danai, P. and Martin, G. S.},
  title = {Epidemiology of sepsis: recent advances},
  journal = {Curr Infect Dis Rep},
  year = {2005},
  volume = {7},
  pages = {329--334},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Daniels2011,
  author = {Daniels, R.},
  title = {Surviving the first hours in sepsis: getting the basics right (an
	intensivist's perspective).},
  journal = {J Antimicrob Chemother},
  year = {2011},
  volume = {66 Suppl 2},
  pages = {ii11--23},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Davila2010,
  author = {Davila, S. and Wright, V. J. and Khor, C. C. and Sim, K. S. and Binder,
	A. and Breunis, W. B. and Inwald, D. and Nadel, S. and Betts, H.
	and Carrol, E. D. and de Groot, R. and Hermans, P. W. and Hazelzet,
	J. and Emonts, M. and Lim, C. C. and Kuijpers, T. W. and Martinon-Torres,
	F. and Salas, A. and Zenz, W. and Levin, M. and Hibberd, M. L. and
	International Meningococcal Genetics, Consortium},
  title = {Genome-wide association study identifies variants in the CFH region
	associated with host susceptibility to meningococcal disease},
  journal = {Nat Genet},
  year = {2010},
  volume = {42},
  pages = {772-6},
  number = {9}
}

@ARTICLE{Dean2003,
  author = {Dean, M.},
  title = {Approaches to identify genes for complex human diseases: lessons
	from Mendelian disorders.},
  journal = {Hum Mutat},
  year = {2003},
  volume = {22},
  pages = {261--274},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Deans2005,
  author = {Deans, K. J. and Haley, M. and Natanson, C. and Eichacker, P. Q.
	and Minneci, P. C.},
  title = {Novel therapies for sepsis: a review},
  journal = {J Trauma},
  year = {2005},
  volume = {58},
  pages = {867--874},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Deasy2010,
  author = {Deasy, A. and Read, R. C.},
  title = {Genetic variation in pro-inflammatory cytokines and meningococcal
	sepsis},
  journal = {Curr Opin Infect Dis},
  year = {2010},
  volume = {23},
  pages = {255-8},
  number = {3}
}

@ARTICLE{Debey2004,
  author = {Debey, S. and Schoenbeck, U. and Hellmich, M. and Gathof, B. S. and
	Pillai, R. and Zander, T. and Schultze, J. L.},
  title = {Comparison of different isolation techniques prior gene expression
	profiling of blood derived cells: impact on physiological responses,
	on overall expression and the role of different cell types},
  journal = {Pharmacogenomics J},
  year = {2004},
  volume = {4},
  pages = {193-207},
  number = {3}
}

@ARTICLE{DeGobbi2006,
  author = {De Gobbi, M. and Viprakasit, V. and Hughes, J. R. and Fisher, C.
	and Buckle, V. J. and Ayyub, H. and Gibbons, R. J. and Vernimmen,
	D. and Yoshinaga, Y. and de Jong, P. and Cheng, J. F. and Rubin,
	E. M. and Wood, W. G. and Bowden, D. and Higgs, D. R.},
  title = {A regulatory SNP causes a human genetic disease by creating a new
	transcriptional promoter},
  journal = {Science},
  year = {2006},
  volume = {312},
  pages = {1215--1217},
  number = {5777},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dekker2006,
  author = {Dekker, J.},
  title = {The three 'C' s of chromosome conformation capture: controls, controls,
	controls},
  journal = {Nat Methods},
  year = {2006},
  volume = {3},
  pages = {17--21},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Delaneau2012,
  author = {Delaneau, O. and Marchini, J. and Zagury, J. F.},
  title = {A linear complexity phasing method for thousands of genomes},
  journal = {Nat Methods},
  year = {2012},
  volume = {9},
  pages = {179--181},
  number = {2}
}

@ARTICLE{Dellinger2003,
  author = {Dellinger, R. P.},
  title = {Cardiovascular management of septic shock.},
  journal = {Crit Care Med},
  year = {2003},
  volume = {31},
  pages = {946--955},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dellinger2008,
  author = {Dellinger, R. P. and Levy, M. M. and Carlet, J. M. and Bion, J. and
	Parker, M. M. and Jaeschke, R. and Reinhart, K. and Angus, D. C.
	and Brun-Buisson, C. and Beale, R. and Calandra, T. and Dhainaut,
	J. F. and Gerlach, H. and Harvey, M. and Marini, J. J. and Marshall,
	J. and Ranieri, M. and Ramsay, G. and Sevransky, J. and Thompson,
	B. T. and Townsend, S. and Vender, J. S. and Zimmerman, J. L. and
	Vincent, J. L. and Committee, International Surviving Sepsis Campaign
	Guidelines and Nurses, American Association of Critical-Care and
	Physicians, American College of Chest and Physicians, American College
	of Emergency and Society, Canadian Critical Care and Diseases, European
	Society of Clinical Microbiology and Infectious and Medicine, European
	Society of Intensive Care and Society, European Respiratory and Forum,
	International Sepsis and Medicine, Japanese Association for Acute
	and Medicine, Japanese Society of Intensive Care and Medicine, Society
	of Critical Care and Medicine, Society of Hospital and Society, Surgical
	Infection and Medicine, World Federation of Societies of Intensive
	and Critical Care},
  title = {Surviving Sepsis Campaign: international guidelines for management
	of severe sepsis and septic shock: 2008.},
  journal = {Crit Care Med},
  year = {2008},
  volume = {36},
  pages = {296--327},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Depristo2011,
  author = {Depristo, M. A. and Banks, E. and Poplin, R. and Garimella, K. V.
	and Maguire, J. R. and Hartl, C. and Philippakis, A. A. and Del Angel,
	G. and Rivas, M. A. and Hanna, M. and McKenna, A. and Fennell, T.
	J. and Kernytsky, A. M. and Sivachenko, A. Y. and Cibulskis, K. and
	Gabriel, S. B. and Altshuler, D. and Daly, M. J.},
  title = {A framework for variation discovery and genotyping using next-generation
	DNA sequencing data.},
  journal = {Nat Genet},
  year = {2011},
  volume = {43},
  pages = {491--498},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Desai2011,
  author = {Desai, K. H. and Tan, C. S. and Leek, J. T. and Maier, R. V. and
	Tompkins, R. G. and Storey, J. D. and Inflammation and the Host Response
	to Injury Large-Scale Collaborative Research, Program},
  title = {Dissecting inflammatory complications in critically injured patients
	by within-patient gene expression changes: a longitudinal clinical
	genomics study},
  journal = {PLoS Med},
  year = {2011},
  volume = {8},
  pages = {e1001093},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dey-Rao2014,
  author = {Dey-Rao, R. and Smith, J. R. and Chow, S. and Sinha, A. A.},
  title = {Differential gene expression analysis in CCLE lesions provides new
	insights regarding the genetics basis of skin vs. systemic disease},
  journal = {Genomics},
  year = {2014},
  volume = {104},
  pages = {144-55},
  number = {2}
}

@ARTICLE{Didierlaurent2008,
  author = {Didierlaurent, A and Goulding, J and Patel, S and Snelgrove, R and
	Low, L and Bebien, M and Lawrence, T and van Rijt, LS and Lambrecht,
	BN and Sirard, JC and Hussell, T},
  title = {Sustained desensitization to bacterial Toll-like receptor ligands
	after resolution of respiratory influenza infection.},
  journal = {J Exp Med},
  year = {2008},
  volume = {205},
  pages = {323--329},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dillies2013,
  author = {Dillies, M. A. and Rau, A. and Aubert, J. and Hennequet-Antier, C.
	and Jeanmougin, M. and Servant, N. and Keime, C. and Marot, G. and
	Castel, D. and Estelle, J. and Guernec, G. and Jagla, B. and Jouneau,
	L. and Laloe, D. and Le Gall, C. and Schaeffer, B. and Le Crom, S.
	and Guedj, M. and Jaffrezic, F. and French StatOmique, Consortium},
  title = {A comprehensive evaluation of normalization methods for Illumina
	high-throughput RNA sequencing data analysis},
  journal = {Brief Bioinform},
  year = {2013},
  volume = {14},
  pages = {671--683},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dimas2009,
  author = {Dimas, A. S. and Deutsch, S. and Stranger, B. E. and Montgomery,
	S. B. and Borel, C. and Attar-Cohen, H. and Ingle, C. and Beazley,
	C. and Gutierrez Arcelus, M. and Sekowska, M. and Gagnebin, M. and
	Nisbett, J. and Deloukas, P. and Dermitzakis, E. T. and Antonarakis,
	S. E.},
  title = {Common regulatory variation impacts gene expression in a cell type-dependent
	manner},
  journal = {Science},
  year = {2009},
  volume = {325},
  pages = {1246--1250},
  number = {5945},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ding2009,
  author = {Ding, B and Kirkiles-Smith, N and Pober, J},
  title = {FOXO3a Regulates Oxygen-responsive Expression of Tumor Necrosis Factor
	Receptor 2 in Human Dermal Microvascular Endothelial Cells —
	JBC},
  journal = {The Journal of Biological Chemistry},
  year = {2009},
  volume = {284},
  pages = {19331--19339},
  number = {29},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dioszeghy2008,
  author = {Dioszeghy, V. and Rosas, M. and Maskrey, B. H. and Colmont, C. and
	Topley, N. and Chaitidis, P. and Kuhn, H. and Jones, S. A. and Taylor,
	P. R. and O'Donnell, V. B.},
  title = {12/15-Lipoxygenase regulates the inflammatory response to bacterial
	products in vivo},
  journal = {J Immunol},
  year = {2008},
  volume = {181},
  pages = {6514--6524},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{DiRenzo2004,
  author = {Di Renzo, M. and Pasqui, A. L. and Auteri, A.},
  title = {Common variable immunodeficiency: a review},
  journal = {Clin Exp Med},
  year = {2004},
  volume = {3},
  pages = {211--217},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dixon2007,
  author = {Dixon, Anna L. and Liang, Liming and Moffatt, Miriam F. and Chen,
	Wei and Heath, Simon and Wong, Kenny C. C. and Taylor, Jenny and
	Burnett, Edward and Gut, Ivo and Farrall, Martin and Lathrop, G.
	Mark and Abecasis, Goncalo R. and Cookson, William O. C.},
  title = {A genome-wide association study of global gene expression},
  journal = {Nat Genet},
  year = {2007},
  volume = {39},
  pages = {1202--1207},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Djebali2012,
  author = {Djebali, S. and Davis, C. A. and Merkel, A. and Dobin, A. and Lassmann,
	T. and Mortazavi, A. and Tanzer, A. and Lagarde, J. and Lin, W. and
	Schlesinger, F. and Xue, C. and Marinov, G. K. and Khatun, J. and
	Williams, B. A. and Zaleski, C. and Rozowsky, J. and Roder, M. and
	Kokocinski, F. and Abdelhamid, R. F. and Alioto, T. and Antoshechkin,
	I. and Baer, M. T. and Bar, N. S. and Batut, P. and Bell, K. and
	Bell, I. and Chakrabortty, S. and Chen, X. and Chrast, J. and Curado,
	J. and Derrien, T. and Drenkow, J. and Dumais, E. and Dumais, J.
	and Duttagupta, R. and Falconnet, E. and Fastuca, M. and Fejes-Toth,
	K. and Ferreira, P. and Foissac, S. and Fullwood, M. J. and Gao,
	H. and Gonzalez, D. and Gordon, A. and Gunawardena, H. and Howald,
	C. and Jha, S. and Johnson, R. and Kapranov, P. and King, B. and
	Kingswood, C. and Luo, O. J. and Park, E. and Persaud, K. and Preall,
	J. B. and Ribeca, P. and Risk, B. and Robyr, D. and Sammeth, M. and
	Schaffer, L. and See, L. H. and Shahab, A. and Skancke, J. and Suzuki,
	A. M. and Takahashi, H. and Tilgner, H. and Trout, D. and Walters,
	N. and Wang, H. and Wrobel, J. and Yu, Y. and Ruan, X. and Hayashizaki,
	Y. and Harrow, J. and Gerstein, M. and Hubbard, T. and Reymond, A.
	and Antonarakis, S. E. and Hannon, G. and Giddings, M. C. and Ruan,
	Y. and Wold, B. and Carninci, P. and Guigo, R. and Gingeras, T. R.},
  title = {Landscape of transcription in human cells},
  journal = {Nature},
  year = {2012},
  volume = {489},
  pages = {101-8},
  number = {7414}
}

@ARTICLE{Dobrovolskaia2002,
  author = {Dobrovolskaia, M and Vogel, S},
  title = {Toll receptors, CD14, and macrophage activation and deactivation
	by LPS},
  journal = {Microbes and Infection},
  year = {2002},
  volume = {4},
  pages = {903--914},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dombrovskiy2007,
  author = {Dombrovskiy, V. Y. and Martin, A. A. and Sunderram, J. and Paz, H.
	L.},
  title = {Rapid increase in hospitalization and mortality rates for severe
	sepsis in the United States: a trend analysis from 1993 to 2003.},
  journal = {Crit Care Med},
  year = {2007},
  volume = {35},
  pages = {1244--1250},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Domingues-Ferreira2009,
  author = {Domingues-Ferreira, M and Grumach, AS and Duarte, AJ and De Moraes-Vasconcelos,
	D},
  title = {Esophageal cancer associated with chronic mucocutaneous candidiasis.
	Could chronic candidiasis lead to esophageal cancer?},
  journal = {Med Mycol},
  year = {2009},
  volume = {47},
  pages = {201--205},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dranoff2004,
  author = {Dranoff, G.},
  title = {Cytokines in cancer pathogenesis and cancer therapy},
  journal = {Nat Rev Cancer},
  year = {2004},
  volume = {4},
  pages = {11--22},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dumeaux2010,
  author = {Dumeaux, V. and Olsen, K. S. and Nuel, G. and Paulssen, R. H. and
	Børresen-Dale, A. L. and Lund, E.},
  title = {Deciphering normal blood gene expression variation--The NOWAC postgenome
	study.},
  journal = {PLoS Genet},
  year = {2010},
  volume = {6},
  pages = {e1000873},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Dzhagalov2007,
  author = {Dzhagalov, I. and Chambon, P. and He, Y. W.},
  title = {Regulation of {CD}8+ T lymphocyte effector function and macrophage
	inflammatory cytokine production by retinoic acid receptor gamma},
  journal = {J Immunol},
  year = {2007},
  volume = {178},
  pages = {2113--2121},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Echtenacher2002,
  author = {Echtenacher, B and Mannel, D},
  title = {Requirement of TNF and TNF receptor type 2 for LPS-induced protection
	from lethal septic peritonitis},
  journal = {Journal of Endotoxin Tolerance},
  year = {2002},
  volume = {8},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Edgar2002,
  author = {Edgar, R. and Domrachev, M. and Lash, A. E.},
  title = {Gene Expression Omnibus: NCBI gene expression and hybridization array
	data repository},
  journal = {Nucleic Acids Res},
  year = {2002},
  volume = {30},
  pages = {207--210},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Eibel2010,
  author = {Eibel, H. and Salzer, U. and Warnatz, K.},
  title = {Common variable immunodeficiency at the end of a prospering decade:
	towards novel gene defects and beyond.},
  journal = {Curr Opin Allergy Clin Immunol},
  year = {2010},
  volume = {10},
  pages = {526--533},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Eissner2000,
  author = {Eissner, G and Kirchner, S and Linder, H and Kolch, W and Janosch,
	P and Grell, M and Scheurich, P and Andreesen, R and Holler, E},
  title = {Reverse Signaling Through Transmembrane TNF Confers Resistance to
	Lipopolysaccharide in Human Monocytes and Macrophages},
  journal = {The Journal of Immunology},
  year = {2000},
  volume = {164},
  pages = {6193--6198},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Elahi2001,
  author = {Elahi, S and Clancy, R and Pang, G},
  title = {A therapeutic vaccine for mucosal candidiasis.},
  journal = {Vaccine},
  year = {2001},
  volume = {19},
  pages = {2516--2521},
  number = {17-19},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Emilsson2008,
  author = {Emilsson, V. and Thorleifsson, G. and Zhang, B. and Leonardson, A.
	S. and Zink, F. and Zhu, J. and Carlson, S. and Helgason, A. and
	Walters, G. B. and Gunnarsdottir, S. and Mouy, M. and Steinthorsdottir,
	V. and Eiriksdottir, G. H. and Bjornsdottir, G. and Reynisdottir,
	I. and Gudbjartsson, D. and Helgadottir, A. and Jonasdottir, A. and
	Jonasdottir, A. and Styrkarsdottir, U. and Gretarsdottir, S. and
	Magnusson, K. P. and Stefansson, H. and Fossdal, R. and Kristjansson,
	K. and Gislason, H. G. and Stefansson, T. and Leifsson, B. G. and
	Thorsteinsdottir, U. and Lamb, J. R. and Gulcher, J. R. and Reitman,
	M. L. and Kong, A. and Schadt, E. E. and Stefansson, K.},
  title = {Genetics of gene expression and its effect on disease},
  journal = {Nature},
  year = {2008},
  volume = {452},
  pages = {423--428},
  number = {7186},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Emmert-Streib2011,
  author = {Emmert-Streib, F. and Glazko, G. V.},
  title = {Pathway analysis of expression data: deciphering functional building
	blocks of complex diseases},
  journal = {PLoS Comput Biol},
  year = {2011},
  volume = {7},
  pages = {e1002053},
  number = {5}
}

@ARTICLE{ENCODE,
  author = {{Encode Project Consortium}},
  title = {An integrated encyclopedia of {DNA} elements in the human genome},
  journal = {Nature},
  year = {2012},
  volume = {489},
  pages = {57--74},
  number = {7414}
}

@ARTICLE{Engelhardt2012,
  author = {Engelhardt, K. R. and Grimbacher, B.},
  title = {Mendelian traits causing susceptibility to mucocutaneous fungal infections
	in human subjects},
  journal = {J Allergy Clin Immunol},
  year = {2012},
  volume = {129},
  pages = {294--305; quiz306--297},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Epstein2010,
  author = {Epstein, S. L. and Price, G. E.},
  title = {Cross-protective immunity to influenza A viruses},
  journal = {Expert Rev Vaccines},
  year = {2010},
  volume = {9},
  pages = {1325--1341},
  number = {11},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@BOOK{Everitt2011,
  title = {An introduction to applied multivariate analysis with R},
  publisher = {Springer},
  year = {2011},
  author = {Everitt, B. and Hothorn, T.},
  address = {New York}
}

@ARTICLE{Fairfax2010,
  author = {Fairfax, B and Vannberg, F and Radhakrishnan, J and Hakonarson, H
	and Keating, B and Hill, A and Knight, J},
  title = {An integrated expression phenotype mapping approach defines common
	variants in LEP, ALOX15 and CAPNS1 associated with induction of IL-6},
  journal = {Hum Mol Genet},
  year = {2010},
  volume = {19},
  pages = {720--730},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fairfax2014,
  author = {Fairfax, B. P. and Humburg, P. and Makino, S. and Naranbhai, V. and
	Wong, D. and Lau, E. and Jostins, L. and Plant, K. and Andrews, R.
	and McGee, C. and Knight, J. C.},
  title = {Innate immune activity conditions the effect of regulatory variants
	upon monocyte gene expression},
  journal = {Science},
  year = {2014},
  volume = {343},
  pages = {1246949},
  number = {6175},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fairfax2014a,
  author = {Fairfax, B. P. and Knight, J. C.},
  title = {Genetics of gene expression in immunity to infection},
  journal = {Curr Opin Immunol},
  year = {2014},
  volume = {30C},
  pages = {63-71}
}

@ARTICLE{Fairfax2012,
  author = {Fairfax, B. P. and Makino, S. and Radhakrishnan, J. and Plant, K.
	and Leslie, S. and Dilthey, A. and Ellis, P. and Langford, C. and
	Vannberg, F. O. and Knight, J. C.},
  title = {Genetics of gene expression in primary immune cells identifies cell
	type-specific master regulators and roles of HLA alleles},
  journal = {Nat Genet},
  year = {2012},
  volume = {44},
  pages = {502-510},
  issue = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fan2004,
  author = {Fan, H and Cook, JA},
  title = {Molecular mechanisms of endotoxin tolerance.},
  journal = {J Endotoxin Res},
  year = {2004},
  volume = {10},
  pages = {71--84},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{FANTOM,
  author = {{FANTOM Consortium}, Riken Pmi and Clst and Forrest, A. R. and Kawaji,
	H. and Rehli, M. and Baillie, J. K. and de Hoon, M. J. and Lassmann,
	T. and Itoh, M. and Summers, K. M. and Suzuki, H. and Daub, C. O.
	and Kawai, J. and Heutink, P. and Hide, W. and Freeman, T. C. and
	Lenhard, B. and Bajic, V. B. and Taylor, M. S. and Makeev, V. J.
	and Sandelin, A. and Hume, D. A. and Carninci, P. and Hayashizaki,
	Y.},
  title = {A promoter-level mammalian expression atlas},
  journal = {Nature},
  year = {2014},
  volume = {507},
  pages = {462--470},
  number = {7493}
}

@ARTICLE{Feezor2004,
  author = {Feezor, R. J. and Baker, H. V. and Mindrinos, M. and Hayden, D. and
	Tannahill, C. L. and Brownstein, B. H. and Fay, A. and MacMillan,
	S. and Laramie, J. and Xiao, W. and Moldawer, L. L. and Cobb, J.
	P. and Laudanski, K. and Miller-Graziano, C. L. and Maier, R. V.
	and Schoenfeld, D. and Davis, R. W. and Tompkins, R. G. and Inflammation
	and Host Response to Injury, Large-Scale Collaborative Research Program},
  title = {Whole blood and leukocyte RNA isolation for gene expression analyses},
  journal = {Physiol Genomics},
  year = {2004},
  volume = {19},
  pages = {247--254},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fehrmann2011,
  author = {Fehrmann, R. S. and Jansen, R. C. and Veldink, J. H. and Westra,
	H. J. and Arends, D. and Bonder, M. J. and Fu, J. and Deelen, P.
	and Groen, H. J. and Smolonska, A. and Weersma, R. K. and Hofstra,
	R. M. and Buurman, W. A. and Rensen, S. and Wolfs, M. G. and Platteel,
	M. and Zhernakova, A. and Elbers, C. C. and Festen, E. M. and Trynka,
	G. and Hofker, M. H. and Saris, C. G. and Ophoff, R. A. and van den
	Berg, L. H. and van Heel, D. A. and Wijmenga, C. and Te Meerman,
	G. J. and Franke, L.},
  title = {Trans-eQTLs reveal that independent genetic variants associated with
	a complex phenotype converge on intermediate genes, with a major
	role for the HLA},
  journal = {PLoS Genet},
  year = {2011},
  volume = {7},
  pages = {e1002197},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fijen1999,
  author = {Fijen, C. A. and Kuijper, E. J. and te Bulte, M. T. and Daha, M.
	R. and Dankert, J.},
  title = {Assessment of complement deficiency in patients with meningococcal
	disease in The Netherlands},
  journal = {Clin Infect Dis},
  year = {1999},
  volume = {28},
  pages = {98--105},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{File2004,
  author = {File, T. M., Jr.},
  title = {Streptococcus pneumoniae and community-acquired pneumonia: a cause
	for concern},
  journal = {Am J Med},
  year = {2004},
  volume = {117 Suppl 3A},
  pages = {39S-50S},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Fitting2004,
  author = {Fitting, C. and Dhawan, S. and Cavaillon, J. M.},
  title = {Compartmentalization of tolerance to endotoxin},
  journal = {J Infect Dis},
  year = {2004},
  volume = {189},
  pages = {1295-1303},
  number = {7}
}

@ARTICLE{Flanagan2013,
  author = {Flanagan, K. L. and Noho-Konteh, F. and Ghazal, P. and Dickinson,
	P.},
  title = {Transcriptional profiling technology for studying vaccine responses:
	An untapped goldmine},
  journal = {Methods},
  year = {2013},
  volume = {60},
  pages = {269--274},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Flicek2009,
  author = {Flicek, P. and Birney, E.},
  title = {Sense from sequence reads: methods for alignment and assembly},
  journal = {Nat Methods},
  year = {2009},
  volume = {6},
  pages = {S6-S12},
  number = {11 Suppl},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fonkwo2008,
  author = {Fonkwo, P. N.},
  title = {Pricing infectious disease. The economic and health implications
	of infectious diseases},
  journal = {EMBO Rep},
  year = {2008},
  volume = {9 Suppl 1},
  pages = {S13--17},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Foster2007,
  author = {Foster, Simmie L. and Hargreaves, Diana C. and Medzhitov, Ruslan},
  title = {Gene-specific control of inflammation by TLR-induced chromatin modifications},
  journal = {Nature},
  year = {2007},
  volume = {447},
  pages = {972--978},
  number = {7147},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Franco2013,
  author = {Franco, L. M. and Bucasas, K. L. and Wells, J. M. and Nino, D. and
	Wang, X. and Zapata, G. E. and Arden, N. and Renwick, A. and Yu,
	P. and Quarles, J. M. and Bray, M. S. and Couch, R. B. and Belmont,
	J. W. and Shaw, C. A.},
  title = {Integrative genomic analysis of the human immune response to influenza
	vaccination},
  journal = {Elife},
  year = {2013},
  volume = {2},
  pages = {e00299},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Franco2006,
  author = {Franco, S. and Gostissa, M. and Zha, S. and Lombard, D. B. and Murphy,
	M. M. and Zarrin, A. A. and Yan, C. and Tepsuporn, S. and Morales,
	J. C. and Adams, M. M. and Lou, Z. and Bassing, C. H. and Manis,
	J. P. and Chen, J. and Carpenter, P. B. and Alt, F. W.},
  title = {H2AX prevents DNA breaks from progressing to chromosome breaks and
	translocations.},
  journal = {Mol Cell},
  year = {2006},
  volume = {21},
  pages = {201--214},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fresno2009,
  author = {del Fresno, C. and Garcia-Rio, F. and Gomez-Pina, V. and Soares-Schanoski,
	A. and Fernandez-Ruiz, I. and Jurado, T. and Kajiji, T. and Shu,
	C. and Marin, E. and Gutierrez del Arroyo, A. and Prados, C. and
	Arnalich, F. and Fuentes-Prior, P. and Biswas, S. K. and Lopez-Collazo,
	E.},
  title = {Potent phagocytic activity with impaired antigen presentation identifying
	lipopolysaccharide-tolerant human monocytes: demonstration in isolated
	monocytes from cystic fibrosis patients},
  journal = {J Immunol},
  year = {2009},
  volume = {182},
  pages = {6494--6507},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fugger2012,
  author = {Fugger, L. and McVean, G. and Bell, J. I.},
  title = {Genomewide association studies and common disease--realizing clinical
	utility},
  journal = {N Engl J Med},
  year = {2012},
  volume = {367},
  pages = {2370-1},
  number = {25}
}

@ARTICLE{Fujita2009,
  author = {Fujita, T},
  title = {Molecular mechanism of endotoxin tolerance.},
  journal = {Hepatology},
  year = {2009},
  volume = {50},
  pages = {1322},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Fusi2012,
  author = {Fusi, N. and Stegle, O. and Lawrence, N. D.},
  title = {Joint modelling of confounding factors and prominent genetic regulators
	provides increased accuracy in genetical genomics studies},
  journal = {PLoS Comput Biol},
  year = {2012},
  volume = {8},
  pages = {e1002330},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Gabriel2002,
  author = {Gabriel, S. B. and Schaffner, S. F. and Nguyen, H. and Moore, J.
	M. and Roy, J. and Blumenstiel, B. and Higgins, J. and DeFelice,
	M. and Lochner, A. and Faggart, M. and Liu-Cordero, S. N. and Rotimi,
	C. and Adeyemo, A. and Cooper, R. and Ward, R. and Lander, E. S.
	and Daly, M. J. and Altshuler, D.},
  title = {The structure of haplotype blocks in the human genome},
  journal = {Science},
  year = {2002},
  volume = {296},
  pages = {2225--2229},
  number = {5576},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Gaffney2013,
  author = {Gaffney, D. J.},
  title = {Global properties and functional complexity of human gene regulatory
	variation},
  journal = {PLoS Genet},
  year = {2013},
  volume = {9},
  pages = {e1003501},
  number = {5}
}

@ARTICLE{Gaffney2012,
  author = {Gaffney, D. J. and Veyrieras, J. B. and Degner, J. F. and Pique-Regi,
	R. and Pai, A. A. and Crawford, G. E. and Stephens, M. and Gilad,
	Y. and Pritchard, J. K.},
  title = {Dissecting the regulatory architecture of gene expression QTLs},
  journal = {Genome Biol},
  year = {2012},
  volume = {13},
  pages = {R7},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Garred2004,
  author = {Garred, P and Madsen, HO},
  title = {Genetic Susceptibility to Sepsis: A Possible Role for Mannose-binding
	Lectin.},
  journal = {Curr Infect Dis Rep},
  year = {2004},
  volume = {6},
  pages = {367--373},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ge1997,
  author = {Ge, Y. and Ezzell, R. M. and Clark, B. D. and Loiselle, P. M. and
	Amato, S. F. and Warren, H. S.},
  title = {Relationship of tissue and cellular interleukin-1 and lipopolysaccharide
	after endotoxemia and bacteremia},
  journal = {J Infect Dis},
  year = {1997},
  volume = {176},
  pages = {1313-1321},
  number = {5}
}

@ARTICLE{Gennery2006,
  author = {Gennery, A. R.},
  title = {Primary immunodeficiency syndromes associated with defective DNA
	double-strand break repair},
  journal = {Br Med Bull},
  year = {2006},
  volume = {77-78},
  pages = {71--85},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Gentleman2004,
  author = {Gentleman, R. C. and Carey, V. J. and Bates, D. M. and Bolstad, B.
	and Dettling, M. and Dudoit, S. and Ellis, B. and Gautier, L. and
	Ge, Y. and Gentry, J. and Hornik, K. and Hothorn, T. and Huber, W.
	and Iacus, S. and Irizarry, R. and Leisch, F. and Li, C. and Maechler,
	M. and Rossini, A. J. and Sawitzki, G. and Smith, C. and Smyth, G.
	and Tierney, L. and Yang, J. Y. and Zhang, J.},
  title = {Bioconductor: open software development for computational biology
	and bioinformatics},
  journal = {Genome Biol},
  year = {2004},
  volume = {5},
  pages = {R80},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Geppert1994,
  author = {Geppert, TD and Whitehurst, CE and Thompson, P and Beutler, B},
  title = {Lipopolysaccharide signals activation of tumor necrosis factor biosynthesis
	through the ras/raf-1/MEK/MAPK pathway.},
  journal = {Mol Med},
  year = {1994},
  volume = {1},
  pages = {93--103},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Giliani2006,
  author = {Giliani, S. and Bonfim, C. and de Saint Basile, G. and Lanzi, G.
	and Brousse, N. and Koliski, A. and Malvezzi, M. and Fischer, A.
	and Notarangelo, L. D. and Le Deist, F.},
  title = {Omenn syndrome in an infant with IL7RA gene mutation},
  journal = {J Pediatr},
  year = {2006},
  volume = {148},
  pages = {272--274},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Gilissen2010,
  author = {Gilissen, C. and Arts, H. H. and Hoischen, A. and Spruijt, L. and
	Mans, D. A. and Arts, P. and van Lier, B. and Steehouwer, M. and
	van Reeuwijk, J. and Kant, S. G. and Roepman, R. and Knoers, N. V.
	and Veltman, J. A. and Brunner, H. G.},
  title = {Exome sequencing identifies WDR35 variants involved in Sensenbrenner
	syndrome.},
  journal = {Am J Hum Genet},
  year = {2010},
  volume = {87},
  pages = {418--423},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Giovannetti2007,
  author = {Giovannetti, A. and Pierdominici, M. and Mazzetta, F. and Marziali,
	M. and Renzi, C. and Mileo, A. M. and De Felice, M. and Mora, B.
	and Esposito, A. and Carello, R. and Pizzuti, A. and Paggi, M. G.
	and Paganelli, R. and Malorni, W. and Aiuti, F.},
  title = {Unravelling the complexity of T cell abnormalities in common variable
	immunodeficiency},
  journal = {J Immunol},
  year = {2007},
  volume = {178},
  pages = {3932-3943},
  number = {6}
}

@ARTICLE{Glazier2002,
  author = {Glazier, A. M. and Nadeau, J. H. and Aitman, T. J.},
  title = {Finding genes that underlie complex traits},
  journal = {Science},
  year = {2002},
  volume = {298},
  pages = {2345--2349},
  number = {5602},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Glazov2011,
  author = {Glazov, E. A. and Zankl, A. and Donskoi, M. and Kenna, T. J. and
	Thomas, G. P. and Clark, G. R. and Duncan, E. L. and Brown, M. A.},
  title = {Whole-exome re-sequencing in a family quartet identifies POP1 mutations
	as the cause of a novel skeletal dysplasia.},
  journal = {PLoS Genet},
  year = {2011},
  volume = {7},
  pages = {e1002027},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Glocker2010,
  author = {Glocker, E. and Grimbacher, B.},
  title = {Chronic mucocutaneous candidiasis and congenital susceptibility to
	Candida.},
  journal = {Curr Opin Allergy Clin Immunol},
  year = {2010},
  volume = {10},
  pages = {542--550},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Glocker2009,
  author = {Glocker, EO and Hennigs, A and Nabavi, M and Schäffer, AA and Woellner,
	C and Salzer, U and Pfeifer, D and Veelken, H and Warnatz, K and
	Tahami, F and Jamal, S and Manguiat, A and Rezaei, N and Amirzargar,
	AA and Plebani, A and Hannesschläger, N and Gross, O and Ruland,
	J and Grimbacher, B},
  title = {A homozygous CARD9 mutation in a family with susceptibility to fungal
	infections.},
  journal = {N Engl J Med},
  year = {2009},
  volume = {361},
  pages = {1727--1735},
  number = {18},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Goldstein2009,
  author = {Goldstein, D. B.},
  title = {Common genetic variation and human traits},
  journal = {N Engl J Med},
  year = {2009},
  volume = {360},
  pages = {1696--1698},
  number = {17},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Golub1999,
  author = {Golub, T. R. and Slonim, D. K. and Tamayo, P. and Huard, C. and Gaasenbeek,
	M. and Mesirov, J. P. and Coller, H. and Loh, M. L. and Downing,
	J. R. and Caligiuri, M. A. and Bloomfield, C. D. and Lander, E. S.},
  title = {Molecular classification of cancer: class discovery and class prediction
	by gene expression monitoring},
  journal = {Science},
  year = {1999},
  volume = {286},
  pages = {531-537},
  number = {5439}
}

@ARTICLE{Gong1996,
  author = {Gong, W. and Emanuel, B. S. and Collins, J. and Kim, D. H. and Wang,
	Z. and Chen, F. and Zhang, G. and Roe, B. and Budarf, M. L.},
  title = {A transcription map of the DiGeorge and velo-cardio-facial syndrome
	minimal critical region on 22q11},
  journal = {Hum Mol Genet},
  year = {1996},
  volume = {5},
  pages = {789--800},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Goodwin2006,
  author = {Goodwin, K. and Viboud, C. and Simonsen, L.},
  title = {Antibody response to influenza vaccination in the elderly: a quantitative
	review},
  journal = {Vaccine},
  year = {2006},
  volume = {24},
  pages = {1159--1169},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Gordon2004,
  author = {Gordon, AC and Lagan, AL and Aganna, E and Cheung, L and Peters,
	CJ and McDermott, MF and Millo, JL and Welsh, KI and Holloway, P
	and Hitman, GA and Piper, RD and Garrard, CS and Hinds, CJ},
  title = {TNF and TNFR polymorphisms in severe sepsis and septic shock: a prospective
	multicentre study.},
  journal = {Genes Immun},
  year = {2004},
  volume = {5},
  pages = {631--640},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Goris2012,
  author = {Goris, A. and Liston, A.},
  title = {The immunogenetic architecture of autoimmune disease},
  journal = {Cold Spring Harb Perspect Biol},
  year = {2012},
  volume = {4},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Gray1990,
  author = {Gray, PW and Barrett, K and Chantry, D and Turner, M and Feldmann,
	M},
  title = {Cloning of human tumor necrosis factor (TNF) receptor cDNA and expression
	of recombinant soluble TNF-binding protein.},
  journal = {Proc Natl Acad Sci U S A},
  year = {1990},
  volume = {87},
  pages = {7380--7384},
  number = {19},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Grealy2013,
  author = {Grealy, R. and White, M. and Stordeur, P. and Kelleher, D. and Doherty,
	D. G. and McManus, R. and Ryan, T.},
  title = {Characterising cytokine gene expression signatures in patients with
	severe sepsis},
  journal = {Mediators Inflamm},
  year = {2013},
  volume = {2013},
  pages = {164246},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Grimbacher2003,
  author = {Grimbacher, B. and Hutloff, A. and Schlesier, M. and Glocker, E.
	and Warnatz, K. and Dräger, R. and Eibel, H. and Fischer, B. and
	Schäffer, A. A. and Mages, H. W. and Kroczek, R. A. and Peter, H.
	H.},
  title = {Homozygous loss of ICOS is associated with adult-onset common variable
	immunodeficiency},
  journal = {Nat Immunol},
  year = {2003},
  volume = {4},
  pages = {261--268},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Grosshans2008,
  author = {Grosshans, H. and Filipowicz, W.},
  title = {Molecular biology: the expanding world of small RNAs},
  journal = {Nature},
  year = {2008},
  volume = {451},
  pages = {414--416},
  number = {7177},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Grundberg2012,
  author = {Grundberg, E. and Small, K. S. and Hedman, A. K. and Nica, A. C.
	and Buil, A. and Keildson, S. and Bell, J. T. and Yang, T. P. and
	Meduri, E. and Barrett, A. and Nisbett, J. and Sekowska, M. and Wilk,
	A. and Shin, S. Y. and Glass, D. and Travers, M. and Min, J. L. and
	Ring, S. and Ho, K. and Thorleifsson, G. and Kong, A. and Thorsteindottir,
	U. and Ainali, C. and Dimas, A. S. and Hassanali, N. and Ingle, C.
	and Knowles, D. and Krestyaninova, M. and Lowe, C. E. and Di Meglio,
	P. and Montgomery, S. B. and Parts, L. and Potter, S. and Surdulescu,
	G. and Tsaprouni, L. and Tsoka, S. and Bataille, V. and Durbin, R.
	and Nestle, F. O. and O'Rahilly, S. and Soranzo, N. and Lindgren,
	C. M. and Zondervan, K. T. and Ahmadi, K. R. and Schadt, E. E. and
	Stefansson, K. and Smith, G. D. and McCarthy, M. I. and Deloukas,
	P. and Dermitzakis, E. T. and Spector, T. D. and Multiple Tissue
	Human Expression Resource, Consortium},
  title = {Mapping cis- and trans-regulatory effects across multiple tissues
	in twins},
  journal = {Nat Genet},
  year = {2012},
  volume = {44},
  pages = {1084--1089},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{GTEX,
  author = {{GTEx Consortium}},
  title = {The Genotype-Tissue Expression (GTEx) project},
  journal = {Nat Genet},
  year = {2013},
  volume = {45},
  pages = {580--585},
  number = {6}
}

@ARTICLE{Gundry2012,
  author = {Gundry, M. and Vijg, J.},
  title = {Direct mutation analysis by high-throughput sequencing: From germline
	to low-abundant, somatic variants},
  journal = {Mutat Res},
  year = {2012},
  volume = {729},
  pages = {1--15},
  number = {1-2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Guo2012,
  author = {Guo, B. R. and Zhang, X. and Chen, G. and Zhang, J. G. and Sun, L.
	D. and Du, W. D. and Zhang, Q. and Cui, Y. and Zhu, J. and Tang,
	X. F. and Xiao, R. and Liu, Y. and Li, M. and Tang, H. Y. and Yang,
	X. and Cheng, H. and Li, M. and Gao, M. and Li, P. and Wang, J. B.
	and Xu, F. P. and Zuo, X. B. and Zheng, X. D. and Zhang, X. G. and
	Yang, L. and Liu, J. J. and Wang, J. and Yang, S. and Zhang, X. J.},
  title = {Exome sequencing identifies a COL14A1 mutation in a large Chinese
	pedigree with punctate palmoplantar keratoderma},
  journal = {J Med Genet},
  year = {2012},
  volume = {49},
  pages = {563--568},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Haack2010,
  author = {Haack, T. B. and Danhauser, K. and Haberberger, B. and Hoser, J.
	and Strecker, V. and Boehm, D. and Uziel, G. and Lamantea, E. and
	Invernizzi, F. and Poulton, J. and Rolinski, B. and Iuso, A. and
	Biskup, S. and Schmidt, T. and Mewes, H. W. and Wittig, I. and Meitinger,
	T. and Zeviani, M. and Prokisch, H.},
  title = {Exome sequencing identifies ACAD9 mutations as a cause of complex
	I deficiency.},
  journal = {Nat Genet},
  year = {2010},
  volume = {42},
  pages = {1131--1134},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Hammarstrom2000,
  author = {Hammarstr\"{o}m, L. and Vorechovsky, I. and Webster, D.},
  title = {Selective IgA deficiency (SIgAD) and common variable immunodeficiency
	(CVID)},
  journal = {Clin Exp Immunol},
  year = {2000},
  volume = {120},
  pages = {225--231},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Hanna2011,
  author = {Hanna, S. and Etzoni, A.},
  title = {New host defense mechanisms against Candida species clarify the basis
	of clinical phenotypes.},
  journal = {J Allergy Clin Immunol},
  year = {2011},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Haraksingh2013,
  author = {Haraksingh, R. R. and Snyder, M. P.},
  title = {Impacts of variation in the human genome on gene regulation},
  journal = {J Mol Biol},
  year = {2013},
  volume = {425},
  pages = {3970-3977},
  number = {21}
}

@ARTICLE{Hardy2009,
  author = {Hardy, J and Singleton, A},
  title = {Genomewide Association Studies and Human Disease},
  journal = {N Engl J Med},
  year = {2009},
  volume = {360},
  pages = {1759--1768},
  number = {17},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@MANUAL{Hastie2013,
  title = {pamr: Pam: prediction analysis for microarrays},
  author = {Hastie, T. and Tibshirani, R.and Narasimhan, B. and Chu, G.},
  year = {2013},
  note = {R package version 1.54.1},
  owner = {edavenp},
  timestamp = {2014.09.23},
  url = {http://CRAN.R-project.org/package=pamr}
}

@ARTICLE{Hawkins2010,
  author = {Hawkins, R. D. and Hon, G. C. and Ren, B.},
  title = {Next-generation genomics: an integrative approach},
  journal = {Nat Rev Genet},
  year = {2010},
  volume = {11},
  pages = {476-486},
  number = {7}
}

@ARTICLE{Hecht2000,
  author = {Hecht, J. L. and Aster, J. C.},
  title = {Molecular biology of Burkitt's lymphoma},
  journal = {J Clin Oncol},
  year = {2000},
  volume = {18},
  pages = {3707--3721},
  number = {21},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Herberg2013,
  author = {Herberg, J. A. and Kaforou, M. and Gormley, S. and Sumner, E. R.
	and Patel, S. and Jones, K. D. and Paulus, S. and Fink, C. and Martinon-Torres,
	F. and Montana, G. and Wright, V. J. and Levin, M.},
  title = {Transcriptomic profiling in childhood H1N1/09 influenza reveals reduced
	expression of protein synthesis genes},
  journal = {J Infect Dis},
  year = {2013},
  volume = {208},
  pages = {1664-8},
  number = {10}
}

@ARTICLE{Herre2013,
  author = {Herre, J. and Gronlund, H. and Brooks, H. and Hopkins, L. and Waggoner,
	L. and Murton, B. and Gangloff, M. and Opaleye, O. and Chilvers,
	E. R. and Fitzgerald, K. and Gay, N. and Monie, T. and Bryant, C.},
  title = {Allergens as immunomodulatory proteins: the cat dander protein Fel
	d 1 enhances TLR activation by lipid ligands},
  journal = {J Immunol},
  year = {2013},
  volume = {191},
  pages = {1529--1535},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Hietbrink2006,
  author = {Hietbrink, F. and Koenderman, L. and Rijkers, G. T. and Leenen, L.
	P. H.},
  title = {Trauma: the role of the innate immune system},
  journal = {World J Emerg Surg},
  year = {2006},
  volume = {1},
  pages = {15},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Hill2012,
  author = {Hill, A. V.},
  title = {Evolution, revolution and heresy in the genetics of infectious disease
	susceptibility},
  journal = {Philos Trans R Soc Lond B Biol Sci},
  year = {2012},
  volume = {367},
  pages = {840--849},
  number = {1590},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Hill2006,
  author = {Hill, A. V.},
  title = {Aspects of genetic susceptibility to human infectious diseases.},
  journal = {Annu Rev Genet},
  year = {2006},
  volume = {40},
  pages = {469--486},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Himes2012,
  author = {Himes, B. E. and Jiang, X. and Hu, R. and Wu, A. C. and Lasky-Su,
	J. A. and Klanderman, B. J. and Ziniti, J. and Senter-Sylvia, J.
	and Lima, J. J. and Irvin, C. G. and Peters, S. P. and Meyers, D.
	A. and Bleecker, E. R. and Kubo, M. and Tamari, M. and Nakamura,
	Y. and Szefler, S. J. and Lemanske, R. F., Jr. and Zeiger, R. S.
	and Strunk, R. C. and Martinez, F. D. and Hanrahan, J. P. and Koppelman,
	G. H. and Postma, D. S. and Nieuwenhuis, M. A. and Vonk, J. M. and
	Panettieri, R. A., Jr. and Markezich, A. and Israel, E. and Carey,
	V. J. and Tantisira, K. G. and Litonjua, A. A. and Lu, Q. and Weiss,
	S. T.},
  title = {Genome-wide association analysis in asthma subjects identifies SPATS2L
	as a novel bronchodilator response gene},
  journal = {PLoS Genet},
  year = {2012},
  volume = {8},
  pages = {e1002824},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@OTHER{Hindorff,
  author = {Hindorff, L. A. and MacArthur, J. and Morales, J. and Junkins, H.
	A. and Hall, P. N. and Klemm, A. K. and Manolio, T. A.},
  title = {A Catalog of Published Genome-Wide Assocation Studies},
  url = {www.genome.gov/gwastudies},
  urldate = {2014-7-16}
}

@ARTICLE{Hindorff2009,
  author = {Hindorff, L. A. and Sethupathy, P. and Junkins, H. A. and Ramos,
	E. M. and Mehta, J. P. and Collins, F. S. and Manolio, T. A.},
  title = {Potential etiologic and functional implications of genome-wide association
	loci for human diseases and traits},
  journal = {Proc Natl Acad Sci U S A},
  year = {2009},
  volume = {106},
  pages = {9362--9367},
  number = {23},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Hoischen2010,
  author = {Hoischen, A. and van Bon, B. W. and Gilissen, C. and Arts, P. and
	van Lier, B. and Steehouwer, M. and de Vries, P. and de Reuver, R.
	and Wieskamp, N. and Mortier, G. and Devriendt, K. and Amorim, M.
	Z. and Revencu, N. and Kidd, A. and Barbosa, M. and Turner, A. and
	Smith, J. and Oley, C. and Henderson, A. and Hayes, I. M. and Thompson,
	E. M. and Brunner, H. G. and de Vries, B. B. and Veltman, J. A.},
  title = {De novo mutations of SETBP1 cause Schinzel-Giedion syndrome.},
  journal = {Nat Genet},
  year = {2010},
  volume = {42},
  pages = {483--485},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Holmes2003,
  author = {Holmes, C. L. and Russell, J. A. and Walley, K. R.},
  title = {Genetic polymorphisms in sepsis and septic shock: role in prognosis
	and potential for therapy.},
  journal = {Chest},
  year = {2003},
  volume = {124},
  pages = {1103--1115},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Honda2006,
  author = {Honda, K. and Taniguchi, T.},
  title = {{IR}Fs: master regulators of signalling by Toll-like receptors and
	cytosolic pattern-recognition receptors},
  journal = {Nat Rev Immunol},
  year = {2006},
  volume = {6},
  pages = {644--658},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Hormozdiari2009,
  author = {Hormozdiari, F. and Alkan, C. and Eichler, E. E. and Sahinalp, S.
	C.},
  title = {Combinatorial algorithms for structural variation detection in high-throughput
	sequenced genomes},
  journal = {Genome Res},
  year = {2009},
  volume = {19},
  pages = {1270--1278},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Horton2004,
  author = {Horton, Roger and Wilming, Laurens and Rand, Vikki and Lovering,
	Ruth C. and Bruford, Elspeth A. and Khodiyar, Varsha K. and Lush,
	Michael J. and Povey, Sue and Talbot, C. Conover and Wright, Mathew
	W. and Wain, Hester M. and Trowsdale, John and Ziegler, Andreas and
	Beck, Stephan},
  title = {Gene map of the extended human MHC},
  journal = {Nat Rev Genet},
  year = {2004},
  volume = {5},
  pages = {889--899},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Hotchkiss2013,
  author = {Hotchkiss, R. S. and Monneret, G. and Payen, D.},
  title = {Immunosuppression in sepsis: a novel understanding of the disorder
	and a new therapeutic approach},
  journal = {Lancet Infect Dis},
  year = {2013},
  volume = {13},
  pages = {260--268},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Howard2001,
  author = {Howard, L and Zheng, Y and Horrocks, M and Maciewicz, RA and Blobel,
	C},
  title = {Catalytic activity of ADAM28.},
  journal = {FEBS Lett},
  year = {2001},
  volume = {498},
  pages = {82--86},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Howie2011,
  author = {Howie, B. and Marchini, J. and Stephens, M.},
  title = {Genotype imputation with thousands of genomes},
  journal = {G3 (Bethesda)},
  year = {2011},
  volume = {1},
  pages = {457--470},
  number = {6}
}

@ARTICLE{Howie2009,
  author = {Howie, B. N. and Donnelly, P. and Marchini, J.},
  title = {A flexible and accurate genotype imputation method for the next generation
	of genome-wide association studies},
  journal = {PLoS Genet},
  year = {2009},
  volume = {5},
  pages = {e1000529},
  number = {6}
}

@ARTICLE{Hu2014,
  author = {Hu, X. and Kim, H. and Raj, T. and Brennan, P. J. and Trynka, G.
	and Teslovich, N. and Slowikowski, K. and Chen, W. M. and Onengut,
	S. and Baecher-Allan, C. and De Jager, P. L. and Rich, S. S. and
	Stranger, B. E. and Brenner, M. B. and Raychaudhuri, S.},
  title = {Regulation of Gene Expression in Autoimmune Disease Loci and the
	Genetic Basis of Proliferation in CD4+ Effector Memory T Cells},
  journal = {PLoS Genet},
  year = {2014},
  volume = {10},
  pages = {e1004404},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Huang2011a,
  author = {Huang, K.},
  title = {Exome sequencing expedites disease gene discovery.},
  journal = {Clin Genet},
  year = {2011},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Huang2011,
  author = {Huang, Y. and Zaas, A. K. and Rao, A. and Dobigeon, N. and Woolf,
	P. J. and Veldman, T. and Øien, N. C. and McClain, M. T. and Varkey,
	J. B. and Nicholson, B. and Carin, L. and Kingsmore, S. and Woods,
	C. W. and Ginsburg, G. S. and Hero, A. O.},
  title = {Temporal dynamics of host molecular responses differentiate symptomatic
	and asymptomatic influenza a infection.},
  journal = {PLoS Genet},
  year = {2011},
  volume = {7},
  pages = {e1002234},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Huangda2009,
  author = {Huang da, W. and Sherman, B. T. and Lempicki, R. A.},
  title = {Systematic and integrative analysis of large gene lists using DAVID
	bioinformatics resources},
  journal = {Nat Protoc},
  year = {2009},
  volume = {4},
  pages = {44--57},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Huber2002,
  author = {Huber, W. and von Heydebreck, A. and Sultmann, H. and Poustka, A.
	and Vingron, M.},
  title = {Variance stabilization applied to microarray data calibration and
	to the quantification of differential expression},
  journal = {Bioinformatics},
  year = {2002},
  volume = {18 Suppl 1},
  pages = {S96--104},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Hugot2001,
  author = {Hugot, J. P. and Chamaillard, M. and Zouali, H. and Lesage, S. and
	Cezard, J. P. and Belaiche, J. and Almer, S. and Tysk, C. and O'Morain,
	C. A. and Gassull, M. and Binder, V. and Finkel, Y. and Cortot, A.
	and Modigliani, R. and Laurent-Puig, P. and Gower-Rousseau, C. and
	Macry, J. and Colombel, J. F. and Sahbatou, M. and Thomas, G.},
  title = {Association of NOD2 leucine-rich repeat variants with susceptibility
	to Crohn's disease},
  journal = {Nature},
  year = {2001},
  volume = {411},
  pages = {599--603},
  number = {6837},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Hunter2007,
  author = {Hunter, D. J. and Kraft, P.},
  title = {Drinking from the fire hose--statistical issues in genomewide association
	studies},
  journal = {N Engl J Med},
  year = {2007},
  volume = {357},
  pages = {436--439},
  number = {5}
}

@ARTICLE{Husson2013,
  author = {Husson, F. and Josse, J. and Le, S. and Mazet, J. },
  title = { FactoMineR: Multivariate Exploratory Data Analysis and Data Mining
	with R.},
  year = {2013},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Idaghdour2012,
  author = {Idaghdour, Y. and Awadalla, P.},
  title = {Exploiting gene expression variation to capture gene-environment
	interactions for disease},
  journal = {Front Genet},
  year = {2012},
  volume = {3},
  pages = {228}
}

@ARTICLE{Idaghdour2012a,
  author = {Idaghdour, Y. and Quinlan, J. and Goulet, J. P. and Berghout, J.
	and Gbeha, E. and Bruat, V. and de Malliard, T. and Grenier, J. C.
	and Gomez, S. and Gros, P. and Rahimy, M. C. and Sanni, A. and Awadalla,
	P.},
  title = {Evidence for additive and interaction effects of host genotype and
	infection in malaria},
  journal = {Proc Natl Acad Sci U S A},
  year = {2012},
  volume = {109},
  pages = {16786--16793},
  number = {42},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Ikeda2008,
  author = {Ikeda, T.},
  title = {Parkin-co-regulated gene (PACRG) product interacts with tubulin and
	microtubules.},
  journal = {FEBS Lett},
  year = {2008},
  volume = {582},
  pages = {1413--1418},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{HapMap,
  author = {{International HapMap Consortium} and Altshuler, D. M. and Gibbs,
	R. A. and Peltonen, L. and Altshuler, D. M. and Gibbs, R. A. and
	Peltonen, L. and Dermitzakis, E. and Schaffner, S. F. and Yu, F.
	and Peltonen, L. and Dermitzakis, E. and Bonnen, P. E. and Altshuler,
	D. M. and Gibbs, R. A. and de Bakker, P. I. and Deloukas, P. and
	Gabriel, S. B. and Gwilliam, R. and Hunt, S. and Inouye, M. and Jia,
	X. and Palotie, A. and Parkin, M. and Whittaker, P. and Yu, F. and
	Chang, K. and Hawes, A. and Lewis, L. R. and Ren, Y. and Wheeler,
	D. and Gibbs, R. A. and Muzny, D. M. and Barnes, C. and Darvishi,
	K. and Hurles, M. and Korn, J. M. and Kristiansson, K. and Lee, C.
	and McCarrol, S. A. and Nemesh, J. and Dermitzakis, E. and Keinan,
	A. and Montgomery, S. B. and Pollack, S. and Price, A. L. and Soranzo,
	N. and Bonnen, P. E. and Gibbs, R. A. and Gonzaga-Jauregui, C. and
	Keinan, A. and Price, A. L. and Yu, F. and Anttila, V. and Brodeur,
	W. and Daly, M. J. and Leslie, S. and McVean, G. and Moutsianas,
	L. and Nguyen, H. and Schaffner, S. F. and Zhang, Q. and Ghori, M.
	J. and McGinnis, R. and McLaren, W. and Pollack, S. and Price, A.
	L. and Schaffner, S. F. and Takeuchi, F. and Grossman, S. R. and
	Shlyakhter, I. and Hostetter, E. B. and Sabeti, P. C. and Adebamowo,
	C. A. and Foster, M. W. and Gordon, D. R. and Licinio, J. and Manca,
	M. C. and Marshall, P. A. and Matsuda, I. and Ngare, D. and Wang,
	V. O. and Reddy, D. and Rotimi, C. N. and Royal, C. D. and Sharp,
	R. R. and Zeng, C. and Brooks, L. D. and McEwen, J. E.},
  title = {Integrating common and rare genetic variation in diverse human populations},
  journal = {Nature},
  year = {2010},
  volume = {467},
  pages = {52--58},
  number = {7311}
}

@ARTICLE{HapMap2003,
  author = {{International HapMap Consortium} },
  title = {The International HapMap Project},
  journal = {Nature},
  year = {2003},
  volume = {426},
  pages = {789--796},
}

@ARTICLE{Ioannidis2012,
  author = {Ioannidis, I. and McNally, B. and Willette, M. and Peeples, M. E.
	and Chaussabel, D. and Durbin, J. E. and Ramilo, O. and Mejias, A.
	and Flano, E.},
  title = {Plasticity and virus specificity of the airway epithelial cell immune
	response during respiratory virus infection},
  journal = {J Virol},
  year = {2012},
  volume = {86},
  pages = {5422-5436},
  number = {10}
}

@ARTICLE{Ionita-Laza2011,
  author = {Ionita-Laza, I. and Makarov, V. and Yoon, S. and Raby, B. and Buxbaum,
	J. and Nicolae, D. L. and Lin, X.},
  title = {Finding disease variants in mendelian disorders by using sequence
	data: methods and applications.},
  journal = {Am J Hum Genet},
  year = {2011},
  volume = {89},
  pages = {701--712},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Jackson1958,
  author = {Jackson, G. G. and Dowling, H. F. and Spiesman, I. G. and Boand,
	A. V.},
  title = {Transmission of the common cold to volunteers under controlled conditions.
	I. The common cold as a clinical entity},
  journal = {AMA Arch Intern Med},
  year = {1958},
  volume = {101},
  pages = {267--278},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Jaenisch2003,
  author = {Jaenisch, R. and Bird, A.},
  title = {Epigenetic regulation of gene expression: how the genome integrates
	intrinsic and environmental signals},
  journal = {Nat Genet},
  year = {2003},
  volume = {33 Suppl},
  pages = {245--254}
}

@ARTICLE{Janeway2002,
  author = {Janeway, C. A., Jr. and Medzhitov, R.},
  title = {Innate immune recognition},
  journal = {Annu Rev Immunol},
  year = {2002},
  volume = {20},
  pages = {197--216},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Jevremovic2001,
  author = {Jevremovic, D. and Billadeau, D. D. and Schoon, R. A. and Dick, C.
	J. and Leibson, P. J.},
  title = {Regulation of NK cell-mediated cytotoxicity by the adaptor protein
	3BP2},
  journal = {J Immunol},
  year = {2001},
  volume = {166},
  pages = {7219-7228},
  number = {12}
}

@ARTICLE{Jin2012,
  author = {Jin, W. and Qin, P. and Lou, H. and Jin, L. and Xu, S.},
  title = {A systematic characterization of genes underlying both complex and
	Mendelian diseases},
  journal = {Hum Mol Genet},
  year = {2012},
  volume = {21},
  pages = {1611-1624},
  number = {7}
}

@ARTICLE{Jong2002,
  author = {de Jong, BA and Westendorp, RG and Bakker, AM and Huizinga, TW},
  title = {Polymorphisms in or near tumour necrosis factor (TNF)-gene do not
	determine levels of endotoxin-induced TNF production.},
  journal = {Genes Immun},
  year = {2002},
  volume = {3},
  pages = {25--29},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kanegane2007,
  author = {Kanegane, H. and Agematsu, K. and Futatani, T. and Sira, M. M. and
	Suga, K. and Sekiguchi, T. and van Zelm, M. C. and Miyawaki, T.},
  title = {Novel mutations in a Japanese patient with CD19 deficiency},
  journal = {Genes Immun},
  year = {2007},
  volume = {8},
  pages = {663--670},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kashyap2009,
  author = {Kashyap, R. S. and Nayak, A. R. and Deshpande, P. S. and Kabra, D.
	and Purohit, H. J. and Taori, G. M. and Daginawala, H. F.},
  title = {Inter-alpha-trypsin inhibitor heavy chain 4 is a novel marker of
	acute ischemic stroke},
  journal = {Clin Chim Acta},
  year = {2009},
  volume = {402},
  pages = {160-163},
  number = {1-2}
}

@ARTICLE{Kass2010,
  author = {Kass, E. M. and Jasin, M.},
  title = {Collaboration and competition between DNA double-strand break repair
	pathways},
  journal = {FEBS Lett},
  year = {2010},
  volume = {584},
  pages = {3703--3708},
  number = {17},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kaveri2011,
  author = {Kaveri, S. V. and Maddur, M. S. and Hegde, P. and Lacroix-Desmazes,
	S. and Bayry, J.},
  title = {Intravenous immunoglobulins in immunodeficiencies: more than mere
	replacement therapy.},
  journal = {Clin Exp Immunol},
  year = {2011},
  volume = {164 Suppl 2},
  pages = {2--5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kawada2006,
  author = {Kawada, J. and Kimura, H. and Kamachi, Y. and Nishikawa, K. and Taniguchi,
	M. and Nagaoka, K. and Kurahashi, H. and Kojima, S. and Morishima,
	T.},
  title = {Analysis of gene-expression profiles by oligonucleotide microarray
	in children with influenza},
  journal = {J Gen Virol},
  year = {2006},
  volume = {87},
  pages = {1677--1683},
  number = {Pt 6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Keller2013,
  author = {Keller, M. D. and Ganesh, J. and Heltzer, M. and Paessler, M. and
	Bergqvist, A. G. and Baluarte, H. J. and Watkins, D. and Rosenblatt,
	D. S. and Orange, J. S.},
  title = {Severe combined immunodeficiency resulting from mutations in MTHFD1},
  journal = {Pediatrics},
  year = {2013},
  volume = {131},
  pages = {e629--634},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Khomyakova2008,
  author = {Khomyakova, E. and Livshits, M. A. and Steinhauser, M. C. and Dauphinot,
	L. and Cohen-Kaminsky, S. and Rossier, J. and Soussaline, F. and
	Potier, M. C.},
  title = {On-chip hybridization kinetics for optimization of gene expression
	experiments},
  journal = {Biotechniques},
  year = {2008},
  volume = {44},
  pages = {109--117},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kisand2010,
  author = {Kisand, K and Bøe Wolff, AS and Podkrajsek, KT and Tserel, L and
	Link, M and Kisand, KV and Ersvaer, E and Perheentupa, J and Erichsen,
	MM and Bratanic, N and Meloni, A and Cetani, F and Perniola, R and
	Ergun-Longmire, B and Maclaren, N and Krohn, KJ and Pura, M and Schalke,
	B and Ströbel, P and Leite, MI and Battelino, T and Husebye, ES
	and Peterson, P and Willcox, N and Meager, A},
  title = {Chronic mucocutaneous candidiasis in APECED or thymoma patients correlates
	with autoimmunity to Th17-associated cytokines.},
  journal = {J Exp Med},
  year = {2010},
  volume = {207},
  pages = {299--308},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kisand2011,
  author = {Kisand, K. and Lilic, D. and Casanova, J. L. and Peterson, P. and
	Meager, A. and Willcox, N.},
  title = {Mucocutaneous candidiasis and autoimmunity against cytokines in APECED
	and thymoma patients: Clinical and pathogenetic implications.},
  journal = {Eur J Immunol},
  year = {2011},
  volume = {41},
  pages = {1517--1527},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Klein2005,
  author = {Klein, R. J. and Zeiss, C. and Chew, E. Y. and Tsai, J. Y. and Sackler,
	R. S. and Haynes, C. and Henning, A. K. and SanGiovanni, J. P. and
	Mane, S. M. and Mayne, S. T. and Bracken, M. B. and Ferris, F. L.
	and Ott, J. and Barnstable, C. and Hoh, J.},
  title = {Complement factor H polymorphism in age-related macular degeneration},
  journal = {Science},
  year = {2005},
  volume = {308},
  pages = {385--389},
  number = {5720},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Knight2013,
  author = {Knight, J. C.},
  title = {Genomic modulators of the immune response},
  journal = {Trends Genet},
  year = {2013},
  volume = {29},
  pages = {74--83},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Knight2014,
  author = {Knight, J. C.},
  title = {Approaches for establishing the function of regulatory genetic variants involved in disease},
  journal = {Genome Med},
  year = {2014},
  volume = {6},
  pages = {92},
}

@ARTICLE{Knight2012,
  author = {Knight, J. C.},
  title = {Resolving the variable genome and epigenome in human disease},
  journal = {J Intern Med},
  year = {2012},
  volume = {271},
  pages = {379--391},
  number = {4}
}

@ARTICLE{Knight2005,
  author = {Knight, J. C.},
  title = {Regulatory polymorphisms underlying complex disease traits.},
  journal = {J Mol Med (Berl)},
  year = {2005},
  volume = {83},
  pages = {97--109},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Knight2003,
  author = {Knight, Julian C. and Keating, Brendan J. and Rockett, Kirk A. and
	Kwiatkowski, Dominic P.},
  title = {In vivo characterization of regulatory polymorphisms by allele-specific
	quantification of RNA polymerase loading},
  journal = {Nat Genet},
  year = {2003},
  volume = {33},
  pages = {469--475},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kobasa2007,
  author = {Kobasa, D. and Jones, S. M. and Shinya, K. and Kash, J. C. and Copps,
	J. and Ebihara, H. and Hatta, Y. and Kim, J. H. and Halfmann, P.
	and Hatta, M. and Feldmann, F. and Alimonti, J. B. and Fernando,
	L. and Li, Y. and Katze, M. G. and Feldmann, H. and Kawaoka, Y.},
  title = {Aberrant innate immune response in lethal infection of macaques with
	the 1918 influenza virus},
  journal = {Nature},
  year = {2007},
  volume = {445},
  pages = {319--323},
  number = {7125},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Koch2009,
  author = {Koch, D and Lilic, D and Carmichael, AJ},
  title = {Autosomal dominant chronic mucocutaneous candidiasis and primary
	hypothyroidism complicated by oesophageal carcinoma.},
  journal = {Clin Exp Dermatol},
  year = {2009},
  volume = {34},
  pages = {e818--820},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kogenaru2012,
  author = {Kogenaru, S. and Qing, Y. and Guo, Y. and Wang, N.},
  title = {RNA-seq and microarray complement each other in transcriptome profiling},
  journal = {BMC Genomics},
  year = {2012},
  volume = {13},
  pages = {629},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kooperberg2010,
  author = {Kooperberg, C. and LeBlanc, M. and Obenchain, V.},
  title = {Risk prediction using genome-wide association studies},
  journal = {Genet Epidemiol},
  year = {2010},
  volume = {34},
  pages = {643--652},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Kramer2014,
  author = {Kramer, A. and Green, J. and Pollard, J., Jr. and Tugendreich, S.},
  title = {Causal analysis approaches in Ingenuity Pathway Analysis},
  journal = {Bioinformatics},
  year = {2014},
  volume = {30},
  pages = {523--530},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Krausgruber2011,
  author = {Krausgruber, T. and Blazek, K. and Smallie, T. and Alzabin, S. and
	Lockstone, H. and Sahgal, N. and Hussell, T. and Feldmann, M. and
	Udalova, I. A.},
  title = {IRF5 promotes inflammatory macrophage polarization and TH1-TH17 responses},
  journal = {Nat Immunol},
  year = {2011},
  volume = {12},
  pages = {231-238},
  number = {3}
}

@ARTICLE{Krawitz2010,
  author = {Krawitz, P. M. and Schweiger, M. R. and Rödelsperger, C. and Marcelis,
	C. and Kölsch, U. and Meisel, C. and Stephani, F. and Kinoshita,
	T. and Murakami, Y. and Bauer, S. and Isau, M. and Fischer, A. and
	Dahl, A. and Kerick, M. and Hecht, J. and Köhler, S. and Jäger,
	M. and Grünhagen, J. and de Condor, B. J. and Doelken, S. and Brunner,
	H. G. and Meinecke, P. and Passarge, E. and Thompson, M. D. and Cole,
	D. E. and Horn, D. and Roscioli, T. and Mundlos, S. and Robinson,
	P. N.},
  title = {Identity-by-descent filtering of exome sequence data identifies PIGV
	mutations in hyperphosphatasia mental retardation syndrome.},
  journal = {Nat Genet},
  year = {2010},
  volume = {42},
  pages = {827--829},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kreijtz2011,
  author = {Kreijtz, J. H. and Fouchier, R. A. and Rimmelzwaan, G. F.},
  title = {Immune responses to influenza virus infection.},
  journal = {Virus Res},
  year = {2011},
  volume = {162},
  pages = {19--30},
  number = {1-2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ku2010,
  author = {Ku, C. S. and Loy, E. Y. and Salim, A. and Pawitan, Y. and Chia,
	K. S.},
  title = {The discovery of human genetic variations and their use as disease
	markers: past, present and future},
  journal = {J Hum Genet},
  year = {2010},
  volume = {55},
  pages = {403--415},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ku2011,
  author = {Ku, C. S. and Naidoo, N. and Pawitan, Y.},
  title = {Revisiting Mendelian disorders through exome sequencing.},
  journal = {Hum Genet},
  year = {2011},
  volume = {129},
  pages = {351--370},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kuijpers2010,
  author = {Kuijpers, T. W. and Bende, R. J. and Baars, P. A. and Grummels, A.
	and Derks, I. A. and Dolman, K. M. and Beaumont, T. and Tedder, T.
	F. and van Noesel, C. J. and Eldering, E. and van Lier, R. A.},
  title = {CD20 deficiency in humans results in impaired T cell-independent
	antibody responses},
  journal = {J Clin Invest},
  year = {2010},
  volume = {120},
  pages = {214--222},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Kulkarni2008,
  author = {Kulkarni, H. and Agan, B. K. and Marconi, V. C. and O'Connell, R.
	J. and Camargo, J. F. and He, W. and Delmar, J. and Phelps, K. R.
	and Crawford, G. and Clark, R. A. and Dolan, M. J. and Ahuja, S.
	K.},
  title = {CCL3L1-CCR5 genotype improves the assessment of AIDS Risk in HIV-1-infected
	individuals},
  journal = {PLoS One},
  year = {2008},
  volume = {3},
  pages = {e3165},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Lambert2010,
  author = {Lambert, L. C. and Fauci, A. S.},
  title = {Influenza vaccines for the future},
  journal = {N Engl J Med},
  year = {2010},
  volume = {363},
  pages = {2036--2044},
  number = {21},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Langley2013,
  author = {Langley, R. J. and Tsalik, E. L. and Velkinburgh, J. C. and Glickman,
	S. W. and Rice, B. J. and Wang, C. and Chen, B. and Carin, L. and
	Suarez, A. and Mohney, R. P. and Freeman, D. H. and Wang, M. and
	You, J. and Wulff, J. and Thompson, J. W. and Moseley, M. A. and
	Reisinger, S. and Edmonds, B. T. and Grinnell, B. and Nelson, D.
	R. and Dinwiddie, D. L. and Miller, N. A. and Saunders, C. J. and
	Soden, S. S. and Rogers, A. J. and Gazourian, L. and Fredenburgh,
	L. E. and Massaro, A. F. and Baron, R. M. and Choi, A. M. and Corey,
	G. R. and Ginsburg, G. S. and Cairns, C. B. and Otero, R. M. and
	Fowler, V. G., Jr. and Rivers, E. P. and Woods, C. W. and Kingsmore,
	S. F.},
  title = {An integrated clinico-metabolomic model improves prediction of death
	in sepsis},
  journal = {Sci Transl Med},
  year = {2013},
  volume = {5},
  pages = {195ra195},
  number = {195},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Laroux2001,
  author = {Laroux, F. S. and Pavlick, K. P. and Wolf, R. E. and Grisham, M.
	B.},
  title = {Dysregulation of intestinal mucosal immunity: implications in inflammatory
	bowel disease},
  journal = {News Physiol Sci},
  year = {2001},
  volume = {16},
  pages = {272--277},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Lawrence2005,
  author = {Lawrence, T and Puel, A and Reichenbach, J and Ku, CL and Chapgier,
	A and Renner, E and Minard-Colin, V and Ouachée, M and Casanova,
	JL},
  title = {Autosomal-dominant primary immunodeficiencies.},
  journal = {Curr Opin Hematol},
  year = {2005},
  volume = {12},
  pages = {22--30},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Leek2007,
  author = {Leek, J. T. and Storey, J. D.},
  title = {Capturing heterogeneity in gene expression studies by surrogate variable
	analysis},
  journal = {PLoS Genet},
  year = {2007},
  volume = {3},
  pages = {1724--1735},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Levine2013,
  author = {Levine, J. H. and Lin, Y. and Elowitz, M. B.},
  title = {Functional roles of pulsing in genetic circuits},
  journal = {Science},
  year = {2013},
  volume = {342},
  pages = {1193--1200},
  number = {6163},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Levy2002,
  author = {Levy, D. E. and Darnell, J. E., Jr.},
  title = {Stats: transcriptional control and biological impact},
  journal = {Nat Rev Mol Cell Biol},
  year = {2002},
  volume = {3},
  pages = {651--662},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Levy2010,
  author = {Levy, M. M. and Dellinger, R. P. and Townsend, S. R. and Linde-Zwirble,
	W. T. and Marshall, J. C. and Bion, J. and Schorr, C. and Artigas,
	A. and Ramsay, G. and Beale, R. and Parker, M. M. and Gerlach, H.
	and Reinhart, K. and Silva, E. and Harvey, M. and Regan, S. and Angus,
	D. C. and Campaign, Surviving Sepsis},
  title = {The Surviving Sepsis Campaign: results of an international guideline-based
	performance improvement program targeting severe sepsis.},
  journal = {Crit Care Med},
  year = {2010},
  volume = {38},
  pages = {367--374},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Li2011,
  author = {Li, M. and Wang, I. X. and Li, Y. and Bruzel, A. and Richards, A.
	L. and Toung, J. M. and Cheung, V. G.},
  title = {Widespread RNA and DNA Sequence Differences in the Human Transcriptome.},
  journal = {Science},
  year = {2011},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Li2014,
  author = {Li, S. and Rouphael, N. and Duraisingham, S. and Romero-Steiner,
	S. and Presnell, S. and Davis, C. and Schmidt, D. S. and Johnson,
	S. E. and Milton, A. and Rajam, G. and Kasturi, S. and Carlone, G.
	M. and Quinn, C. and Chaussabel, D. and Palucka, A. K. and Mulligan,
	M. J. and Ahmed, R. and Stephens, D. S. and Nakaya, H. I. and Pulendran,
	B.},
  title = {Molecular signatures of antibody responses derived from a systems
	biology study of five human vaccines},
  journal = {Nat Immunol},
  year = {2014},
  volume = {15},
  pages = {195--204},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Li2010,
  author = {Li, Y. and Vinckenbosch, N. and Tian, G. and Huerta-Sanchez, E. and
	Jiang, T. and Jiang, H. and Albrechtsen, A. and Andersen, G. and
	Cao, H. and Korneliussen, T. and Grarup, N. and Guo, Y. and Hellman,
	I. and Jin, X. and Li, Q. and Liu, J. and Liu, X. and Sparsø, T.
	and Tang, M. and Wu, H. and Wu, R. and Yu, C. and Zheng, H. and Astrup,
	A. and Bolund, L. and Holmkvist, J. and Jørgensen, T. and Kristiansen,
	K. and Schmitz, O. and Schwartz, T. W. and Zhang, X. and Li, R. and
	Yang, H. and Wang, J. and Hansen, T. and Pedersen, O. and Nielsen,
	R.},
  title = {Resequencing of 200 human exomes identifies an excess of low-frequency
	non-synonymous coding variants.},
  journal = {Nat Genet},
  year = {2010},
  volume = {42},
  pages = {969--972},
  number = {11},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Liang2013,
  author = {Liang, L. and Morar, N. and Dixon, A. L. and Lathrop, G. M. and Abecasis,
	G. R. and Moffatt, M. F. and Cookson, W. O.},
  title = {A cross-platform analysis of 14,177 expression quantitative trait
	loci derived from lymphoblastoid cell lines},
  journal = {Genome Res},
  year = {2013},
  volume = {23},
  pages = {716--726},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Lilic2009,
  author = {Lilic, D},
  title = {Immune response to infection},
  journal = {Anaesthesia \& Intensive Care Medicine},
  year = {2009},
  volume = {10},
  pages = {218--220},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Lilic2002,
  author = {Lilic, D},
  title = {New perspectives on the immunology of chronic mucocutaneous candidiasis.},
  journal = {Curr Opin Infect Dis},
  year = {2002},
  volume = {15},
  pages = {143--147},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Lillie2012,
  author = {Lillie, P. J. and Berthoud, T. K. and Powell, T. J. and Lambe, T.
	and Mullarkey, C. and Spencer, A. J. and Hamill, M. and Peng, Y.
	and Blais, M. E. and Duncan, C. J. and Sheehy, S. H. and Havelock,
	T. and Faust, S. N. and Williams, R. L. and Gilbert, A. and Oxford,
	J. and Dong, T. and Hill, A. V. and Gilbert, S. C.},
  title = {Preliminary assessment of the efficacy of a T-cell-based influenza
	vaccine, MVA-NP+M1, in humans},
  journal = {Clin Infect Dis},
  year = {2012},
  volume = {55},
  pages = {19--25},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Linde-Zwirble2004,
  author = {Linde-Zwirble, W. T. and Angus, D. C.},
  title = {Severe sepsis epidemiology: sampling, selection, and society.},
  journal = {Crit Care},
  year = {2004},
  volume = {8},
  pages = {222--226},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Liu2014,
  author = {Liu, H. and Pecka, J. L. and Zhang, Q. and Soukup, G. A. and Beisel,
	K. W. and He, D. Z.},
  title = {Characterization of transcriptomes of cochlear inner and outer hair
	cells},
  journal = {J Neurosci},
  year = {2014},
  volume = {34},
  pages = {11085-11095},
  number = {33},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Liu2012,
  author = {Liu, J. Z. and Almarri, M. A. and Gaffney, D. J. and Mells, G. F.
	and Jostins, L. and Cordell, H. J. and Ducker, S. J. and Day, D.
	B. and Heneghan, M. A. and Neuberger, J. M. and Donaldson, P. T.
	and Bathgate, A. J. and Burroughs, A. and Davies, M. H. and Jones,
	D. E. and Alexander, G. J. and Barrett, J. C. and Sandford, R. N.
	and Anderson, C. A. and Consortium, U. K. Primary Biliary Cirrhosis
	and Wellcome Trust Case Control, Consortium},
  title = {Dense fine-mapping study identifies new susceptibility loci for primary
	biliary cirrhosis},
  journal = {Nat Genet},
  year = {2012},
  volume = {44},
  pages = {1137--1141},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Liu2011,
  author = {Liu, L. and Okada, S. and Kong, X. F. and Kreins, A. Y. and Cypowyj,
	S. and Abhyankar, A. and Toubiana, J. and Itan, Y. and Audry, M.
	and Nitschke, P. and Masson, C. and Toth, B. and Flatot, J. and Migaud,
	M. and Chrabieh, M. and Kochetkov, T. and Bolze, A. and Borghesi,
	A. and Toulon, A. and Hiller, J. and Eyerich, S. and Eyerich, K.
	and Gulácsy, V. and Chernyshova, L. and Chernyshov, V. and Bondarenko,
	A. and Grimaldo, R. M. and Blancas-Galicia, L. and Beas, I. M. and
	Roesler, J. and Magdorf, K. and Engelhard, D. and Thumerelle, C.
	and Burgel, P. R. and Hoernes, M. and Drexel, B. and Seger, R. and
	Kusuma, T. and Jansson, A. F. and Sawalle-Belohradsky, J. and Belohradsky,
	B. and Jouanguy, E. and Bustamante, J. and Bué, M. and Karin, N.
	and Wildbaum, G. and Bodemer, C. and Lortholary, O. and Fischer,
	A. and Blanche, S. and Al-Muhsen, S. and Reichenbach, J. and Kobayashi,
	M. and Rosales, F. E. and Lozano, C. T. and Kilic, S. S. and Oleastro,
	M. and Etzioni, A. and Traidl-Hoffmann, C. and Renner, E. D. and
	Abel, L. and Picard, C. and Maródi, L. and Boisson-Dupuis, S. and
	Puel, A. and Casanova, J. L.},
  title = {Gain-of-function human STAT1 mutations impair IL-17 immunity and
	underlie chronic mucocutaneous candidiasis.},
  journal = {J Exp Med},
  year = {2011},
  volume = {208},
  pages = {1635--1648},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Liu2008,
  author = {Liu, X. and Yu, X. and Zack, D. J. and Zhu, H. and Qian, J.},
  title = {TiGER: a database for tissue-specific gene expression and regulation},
  journal = {BMC Bioinformatics},
  year = {2008},
  volume = {9},
  pages = {271}
}

@ARTICLE{Llewelyn2001,
  author = {Llewelyn, M. and Cohen, J. and International Sepsis, Forum},
  title = {Diagnosis of infection in sepsis},
  journal = {Intensive Care Med},
  year = {2001},
  volume = {27 Suppl 1},
  pages = {S10--32},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Lopez-Herrera2012,
  author = {Lopez-Herrera, G. and Tampella, G. and Pan-Hammarstrom, Q. and Herholz,
	P. and Trujillo-Vargas, C. M. and Phadwal, K. and Simon, A. K. and
	Moutschen, M. and Etzioni, A. and Mory, A. and Srugo, I. and Melamed,
	D. and Hultenby, K. and Liu, C. and Baronio, M. and Vitali, M. and
	Philippet, P. and Dideberg, V. and Aghamohammadi, A. and Rezaei,
	N. and Enright, V. and Du, L. and Salzer, U. and Eibel, H. and Pfeifer,
	D. and Veelken, H. and Stauss, H. and Lougaris, V. and Plebani, A.
	and Gertz, E. M. and Schaffer, A. A. and Hammarstrom, L. and Grimbacher,
	B.},
  title = {Deleterious mutations in LRBA are associated with a syndrome of immune
	deficiency and autoimmunity},
  journal = {Am J Hum Genet},
  year = {2012},
  volume = {90},
  pages = {986--1001},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Losi2005,
  author = {Losi, C. G. and Silini, A. and Fiorini, C. and Soresina, A. and Meini,
	A. and Ferrari, S. and Notarangelo, L. D. and Lougaris, V. and Plebani,
	A.},
  title = {Mutational analysis of human BAFF receptor TNFRSF13C (BAFF-R) in
	patients with common variable immunodeficiency},
  journal = {J Clin Immunol},
  year = {2005},
  volume = {25},
  pages = {496--502},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Lu2008,
  author = {Lu, Yong-Chen and Yeh, Wen-Chen and Ohashia, Pamela S.},
  title = {LPS/TLR4 signal transduction pathway},
  journal = {Cytokine},
  year = {2008},
  volume = {42},
  pages = {145--151},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Lucas2014,
  author = {Lucas, C. L. and Kuehn, H. S. and Zhao, F. and Niemela, J. E. and
	Deenick, E. K. and Palendira, U. and Avery, D. T. and Moens, L. and
	Cannons, J. L. and Biancalana, M. and Stoddard, J. and Ouyang, W.
	and Frucht, D. M. and Rao, V. K. and Atkinson, T. P. and Agharahimi,
	A. and Hussey, A. A. and Folio, L. R. and Olivier, K. N. and Fleisher,
	T. A. and Pittaluga, S. and Holland, S. M. and Cohen, J. I. and Oliveira,
	J. B. and Tangye, S. G. and Schwartzberg, P. L. and Lenardo, M. J.
	and Uzel, G.},
  title = {Dominant-activating germline mutations in the gene encoding the PI(3)K
	catalytic subunit p110delta result in T cell senescence and human
	immunodeficiency},
  journal = {Nat Immunol},
  year = {2014},
  volume = {15},
  pages = {88--97},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Lucas2010,
  author = {Lucas, M. and Lee, M. and Lortan, J. and Lopez-Granados, E. and Misbah,
	S. and Chapel, H.},
  title = {Infection outcomes in patients with common variable immunodeficiency
	disorders: relationship to immunoglobulin therapy over 22 years},
  journal = {J Allergy Clin Immunol},
  year = {2010},
  volume = {125},
  pages = {1354--1360e1354},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Luckheeram2012,
  author = {Luckheeram, R. V. and Zhou, R. and Verma, A. D. and Xia, B.},
  title = {{CD}4(+)T cells: differentiation and functions},
  journal = {Clin Dev Immunol},
  year = {2012},
  volume = {2012},
  pages = {925135},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Lunter2011,
  author = {Lunter, G. and Goodson, M.},
  title = {Stampy: a statistical algorithm for sensitive and fast mapping of
	Illumina sequence reads},
  journal = {Genome Res},
  year = {2011},
  volume = {21},
  pages = {936--939},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ma2013,
  author = {Ma, Y. and Vilanova, D. and Atalar, K. and Delfour, O. and Edgeworth,
	J. and Ostermann, M. and Hernandez-Fuentes, M. and Razafimahatratra,
	S. and Michot, B. and Persing, D. H. and Ziegler, I. and Toros, B.
	and Molling, P. and Olcen, P. and Beale, R. and Lord, G. M.},
  title = {Genome-wide sequencing of cellular microRNAs identifies a combinatorial
	expression signature diagnostic of sepsis},
  journal = {PLoS One},
  year = {2013},
  volume = {8},
  pages = {e75918},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Mages2007,
  author = {Mages, J and Dietrich, H and Lang, R},
  title = {A genome-wide analysis of LPS tolerance in macrophages.},
  journal = {Immunobiology},
  year = {2007},
  volume = {212},
  pages = {723--737},
  number = {9-10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Maher2008,
  author = {Maher, B.},
  title = {Personal genomes: The case of the missing heritability},
  journal = {Nature},
  year = {2008},
  volume = {456},
  pages = {18--21},
  number = {7218},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Makowsky2011,
  author = {Makowsky, R. and Pajewski, N. M. and Klimentidis, Y. C. and Vazquez,
	A. I. and Duarte, C. W. and Allison, D. B. and de Los Campos, G.},
  title = {Beyond missing heritability: prediction of complex traits.},
  journal = {PLoS Genet},
  year = {2011},
  volume = {7},
  pages = {e1002051},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Mallal2002,
  author = {Mallal, S. and Nolan, D. and Witt, C. and Masel, G. and Martin, A.
	M. and Moore, C. and Sayer, D. and Castley, A. and Mamotte, C. and
	Maxwell, D. and James, I. and Christiansen, F. T.},
  title = {Association between presence of HLA-B*5701, HLA-DR7, and HLA-DQ3
	and hypersensitivity to HIV-1 reverse-transcriptase inhibitor abacavir},
  journal = {Lancet},
  year = {2002},
  volume = {359},
  pages = {727--732},
  number = {9308},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Malphettes2009,
  author = {Malphettes, M. and Gerard, L. and Carmagnat, M. and Mouillot, G.
	and Vince, N. and Boutboul, D. and Berezne, A. and Nove-Josserand,
	R. and Lemoing, V. and Tetu, L. and Viallard, J. F. and Bonnotte,
	B. and Pavic, M. and Haroche, J. and Larroche, C. and Brouet, J.
	C. and Fermand, J. P. and Rabian, C. and Fieschi, C. and Oksenhendler,
	E. and Group, Defi Study},
  title = {Late-onset combined immune deficiency: a subset of common variable
	immunodeficiency with severe T cell defect},
  journal = {Clin Infect Dis},
  year = {2009},
  volume = {49},
  pages = {1329--1338},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Manchia2013,
  author = {Manchia, M. and Cullis, J. and Turecki, G. and Rouleau, G. A. and
	Uher, R. and Alda, M.},
  title = {The impact of phenotypic and genetic heterogeneity on results of
	genome wide association studies of complex diseases},
  journal = {PLoS One},
  year = {2013},
  volume = {8},
  pages = {e76295},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Manolio2010,
  author = {Manolio, T. A.},
  title = {Genomewide association studies and assessment of the risk of disease},
  journal = {N Engl J Med},
  year = {2010},
  volume = {363},
  pages = {166--176},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Manolio2009,
  author = {Manolio, T. A. and Collins, F. S. and Cox, N. J. and Goldstein, D.
	B. and Hindorff, L. A. and Hunter, D. J. and McCarthy, M. I. and
	Ramos, E. M. and Cardon, L. R. and Chakravarti, A. and Cho, J. H.
	and Guttmacher, A. E. and Kong, A. and Kruglyak, L. and Mardis, E.
	and Rotimi, C. N. and Slatkin, M. and Valle, D. and Whittemore, A.
	S. and Boehnke, M. and Clark, A. G. and Eichler, E. E. and Gibson,
	G. and Haines, J. L. and Mackay, T. F. and McCarroll, S. A. and Visscher,
	P. M.},
  title = {Finding the missing heritability of complex diseases},
  journal = {Nature},
  year = {2009},
  volume = {461},
  pages = {747--753},
  number = {7265},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Marchini2007,
  author = {Marchini, J. and Howie, B. and Myers, S. and McVean, G. and Donnelly,
	P.},
  title = {A new multipoint method for genome-wide association studies by imputation
	of genotypes},
  journal = {Nat Genet},
  year = {2007},
  volume = {39},
  pages = {906--913},
  number = {7}
}

@ARTICLE{Marioni2008,
  author = {Marioni, J. C. and Mason, C. E. and Mane, S. M. and Stephens, M.
	and Gilad, Y.},
  title = {RNA-seq: an assessment of technical reproducibility and comparison
	with gene expression arrays},
  journal = {Genome Res},
  year = {2008},
  volume = {18},
  pages = {1509--1517},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Marti-Carvajal2012,
  author = {Marti-Carvajal, A. J. and Sola, I. and Gluud, C. and Lathyris, D.
	and Cardona, A. F.},
  title = {Human recombinant protein C for severe sepsis and septic shock in
	adult and paediatric patients},
  journal = {Cochrane Database Syst Rev},
  year = {2012},
  volume = {12},
  pages = {CD004388}
}

@ARTICLE{Martin2003,
  author = {Martin, G. S. and Mannino, D. M. and Eaton, S. and Moss, M.},
  title = {The epidemiology of sepsis in the United States from 1979 through
	2000},
  journal = {N Engl J Med},
  year = {2003},
  volume = {348},
  pages = {1546--1554},
  number = {16},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Martin2014,
  author = {Martin, H. C. and Kim, G. E. and Pagnamenta, A. T. and Murakami,
	Y. and Carvill, G. L. and Meyer, E. and Copley, R. R. and Rimmer,
	A. and Barcia, G. and Fleming, M. R. and Kronengold, J. and Brown,
	M. R. and Hudspith, K. A. and Broxholme, J. and Kanapin, A. and Cazier,
	J. B. and Kinoshita, T. and Nabbout, R. and Consortium, W. G. S.
	and Bentley, D. and McVean, G. and Heavin, S. and Zaiwalla, Z. and
	McShane, T. and Mefford, H. C. and Shears, D. and Stewart, H. and
	Kurian, M. A. and Scheffer, I. E. and Blair, E. and Donnelly, P.
	and Kaczmarek, L. K. and Taylor, J. C.},
  title = {Clinical whole-genome sequencing in severe early-onset epilepsy reveals
	new genes and improves molecular diagnosis},
  journal = {Hum Mol Genet},
  year = {2014},
  volume = {23},
  pages = {3200--3211},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Maslove2014,
  author = {Maslove, D. M. and Wong, H. R.},
  title = {Gene expression profiling in sepsis: timing, tissue, and translational
	considerations},
  journal = {Trends Mol Med},
  year = {2014},
  volume = {20},
  pages = {204--213},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Mathelier2014,
  author = {Mathelier, A. and Zhao, X. and Zhang, A. W. and Parcy, F. and Worsley-Hunt,
	R. and Arenillas, D. J. and Buchman, S. and Chen, C. Y. and Chou,
	A. and Ienasescu, H. and Lim, J. and Shyr, C. and Tan, G. and Zhou,
	M. and Lenhard, B. and Sandelin, A. and Wasserman, W. W.},
  title = {JASPAR 2014: an extensively expanded and updated open-access database
	of transcription factor binding profiles},
  journal = {Nucleic Acids Res},
  year = {2014},
  volume = {42},
  pages = {D142-147},
  number = {Database issue}
}

@ARTICLE{Mathison1990,
  author = {Mathison, J. C. and Virca, G. D. and Wolfson, E. and Tobias, P. S.
	and Glaser, K. and Ulevitch, R. J.},
  title = {Adaptation to bacterial lipopolysaccharide controls lipopolysaccharide-induced
	tumor necrosis factor production in rabbit macrophages},
  journal = {J Clin Invest},
  year = {1990},
  volume = {85},
  pages = {1108--1118},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Maurano2012,
  author = {Maurano, M. T. and Humbert, R. and Rynes, E. and Thurman, R. E. and
	Haugen, E. and Wang, H. and Reynolds, A. P. and Sandstrom, R. and
	Qu, H. and Brody, J. and Shafer, A. and Neri, F. and Lee, K. and
	Kutyavin, T. and Stehling-Sun, S. and Johnson, A. K. and Canfield,
	T. K. and Giste, E. and Diegel, M. and Bates, D. and Hansen, R. S.
	and Neph, S. and Sabo, P. J. and Heimfeld, S. and Raubitschek, A.
	and Ziegler, S. and Cotsapas, C. and Sotoodehnia, N. and Glass, I.
	and Sunyaev, S. R. and Kaul, R. and Stamatoyannopoulos, J. A.},
  title = {Systematic localization of common disease-associated variation in
	regulatory DNA},
  journal = {Science},
  year = {2012},
  volume = {337},
  pages = {1190--1195},
  number = {6099},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Mazza2011,
  author = {Mazza, C. and Buzi, F. and Ortolani, F. and Vitali, A. and Notarangelo,
	L. D. and Weber, G. and Bacchetta, R. and Soresina, A. and Lougaris,
	V. and Greggio, N. A. and Taddio, A. and Pasic, S. and de Vroede,
	M. and Pac, M. and Kilic, S. S. and Ozden, S. and Rusconi, R. and
	Martino, S. and Capalbo, D. and Salerno, M. and Pignata, C. and Radetti,
	G. and Maggiore, G. and Plebani, A. and Badolato, R.},
  title = {Clinical heterogeneity and diagnostic delay of autoimmune polyendocrinopathy-candidiasis-ectodermal
	dystrophy syndrome.},
  journal = {Clin Immunol},
  year = {2011},
  volume = {139},
  pages = {6--11},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{McCarthy2008,
  author = {McCarthy, M. I. and Abecasis, G. R. and Cardon, L. R. and Goldstein,
	D. B. and Little, J. and Ioannidis, J. P. and Hirschhorn, J. N.},
  title = {Genome-wide association studies for complex traits: consensus, uncertainty
	and challenges},
  journal = {Nat Rev Genet},
  year = {2008},
  volume = {9},
  pages = {356--369},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{McManus2011,
  author = {McManus, B. A. and McGovern, E. and Moran, G. P. and Healy, C. M.
	and Nunn, J. and Fleming, P. and Costigan, C. and Sullivan, D. J.
	and Coleman, D. C.},
  title = {Microbiological Screening of Irish Patients with Autoimmune Polyendocrinopathy-Candidiasis-Ectodermal
	Dystrophy Reveals Persistence of Candida albicans Strains, Gradual
	Reduction in Susceptibility to Azoles, and Incidences of Clinical
	Signs of Oral Candidiasis without Culture Evidence.},
  journal = {J Clin Microbiol},
  year = {2011},
  volume = {49},
  pages = {1879--1889},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{McVicker2013,
  author = {McVicker, G. and van de Geijn, B. and Degner, J. F. and Cain, C.
	E. and Banovich, N. E. and Raj, A. and Lewellen, N. and Myrthil,
	M. and Gilad, Y. and Pritchard, J. K.},
  title = {Identification of genetic variants that affect histone modifications
	in human cells},
  journal = {Science},
  year = {2013},
  volume = {342},
  pages = {747--749},
  number = {6159},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Mecham2010,
  author = {Mecham, B. H. and Nelson, P. S. and Storey, J. D.},
  title = {Supervised normalization of microarrays},
  journal = {Bioinformatics},
  year = {2010},
  volume = {26},
  pages = {1308--1315},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Medvedev2002,
  author = {Medvedev, A and Lentschat, A and Wahl, L and Golenbock, D and Vogel,
	S},
  title = {Dysregulation of LPS-Induced Toll-Like Receptor 4-MyD88 Complex Formation
	and IL-1 Receptor-Associated Kinase 1 Activation in Endotoxin-Tolerant
	Cells},
  journal = {J Immunol},
  year = {2002},
  volume = {169},
  pages = {5209--5216},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Medzhitov2009,
  author = {Medzhitov, Ruslan and Horng, Tiffany},
  title = {Transcriptional control of the inflammatory response},
  journal = {Nat Rev Immunol},
  year = {2009},
  volume = {9},
  pages = {692--703},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Mehraj2013,
  author = {Mehraj, V. and Textoris, J. and Ben Amara, A. and Ghigo, E. and Raoult,
	D. and Capo, C. and Mege, J. L.},
  title = {Monocyte responses in the context of Q fever: from a static polarized
	model to a kinetic model of activation},
  journal = {J Infect Dis},
  year = {2013},
  volume = {208},
  pages = {942-51},
  number = {6}
}

@ARTICLE{Mejias2013,
  author = {Mejias, A. and Dimo, B. and Suarez, N. M. and Garcia, C. and Suarez-Arrabal,
	M. C. and Jartti, T. and Blankenship, D. and Jordan-Villegas, A.
	and Ardura, M. I. and Xu, Z. and Banchereau, J. and Chaussabel, D.
	and Ramilo, O.},
  title = {Whole blood gene expression profiles to assess pathogenesis and disease
	severity in infants with respiratory syncytial virus infection},
  journal = {PLoS Med},
  year = {2013},
  volume = {10},
  pages = {e1001549},
  number = {11}
}

@ARTICLE{Mells2011,
  author = {Mells, G. F. and Floyd, J. A. and Morley, K. I. and Cordell, H. J.
	and Franklin, C. S. and Shin, S. Y. and Heneghan, M. A. and Neuberger,
	J. M. and Donaldson, P. T. and Day, D. B. and Ducker, S. J. and Muriithi,
	A. W. and Wheater, E. F. and Hammond, C. J. and Dawwas, M. F. and
	Consortium, Uk Pbc and Wellcome Trust Case Control, Consortium and
	Jones, D. E. and Peltonen, L. and Alexander, G. J. and Sandford,
	R. N. and Anderson, C. A.},
  title = {Genome-wide association study identifies 12 new susceptibility loci
	for primary biliary cirrhosis},
  journal = {Nat Genet},
  year = {2011},
  volume = {43},
  pages = {329--332},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Melo2009,
  author = {Melo, ES and Goloubkova, T and Barbeiro, DF and Gorjão, R and Vasconcelos,
	D and Szabo, C and Curi, R and de Lima Salgado, TM and Velasco, IT
	and Soriano, FG},
  title = {Endotoxin tolerance: Selective alterations in gene expression and
	protection against lymphocyte death.},
  journal = {Immunobiology},
  year = {2009},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Metersky2012,
  author = {Metersky, M. L. and Masterton, R. G. and Lode, H. and File, T. M.,
	Jr. and Babinchak, T.},
  title = {Epidemiology, microbiology, and treatment considerations for bacterial
	pneumonia complicating influenza},
  journal = {Int J Infect Dis},
volume = {16},
issue={5},
pages={e321-331},
  year = {2012},
  owner = {edavenp},
  timestamp = {2014.09.23}
}


@ARTICLE{Michaelson2009,
  author = {Michaelson, J. J. and Loguercio, S. and Beyer, A.},
  title = {Detection and interpretation of expression quantitative trait loci
	(eQTL)},
  journal = {Methods},
  year = {2009},
  volume = {48},
  pages = {265--276},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Miller2010,
  author = {Miller, E. and Hoschler, K. and Hardelid, P. and Stanford, E. and
	Andrews, N. and Zambon, M.},
  title = {Incidence of 2009 pandemic influenza A H1N1 infection in England:
	a cross-sectional serological study},
  journal = {Lancet},
  year = {2010},
  volume = {375},
  pages = {1100--1108},
  number = {9720},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Milner2013,
  author = {Milner, J. D. and Holland, S. M.},
  title = {The cup runneth over: lessons from the ever-expanding pool of primary
	immunodeficiency diseases},
  journal = {Nat Rev Immunol},
  year = {2013},
  volume = {13},
  pages = {635--648},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Miyagawa2012,
  author = {Miyagawa, M. and Nishio, S. Y. and Usami, S.},
  title = {Prevalence and clinical features of hearing loss patients with CDH23
	mutations: a large cohort study},
  journal = {PLoS One},
  year = {2012},
  volume = {7},
  pages = {e40366},
  number = {8}
}

@ARTICLE{Moffatt2007,
  author = {Moffatt, M. F. and Kabesch, M. and Liang, L. and Dixon, A. L. and
	Strachan, D. and Heath, S. and Depner, M. and von Berg, A. and Bufe,
	A. and Rietschel, E. and Heinzmann, A. and Simma, B. and Frischer,
	T. and Willis-Owen, S. A. and Wong, K. C. and Illig, T. and Vogelberg,
	C. and Weiland, S. K. and von Mutius, E. and Abecasis, G. R. and
	Farrall, M. and Gut, I. G. and Lathrop, G. M. and Cookson, W. O.},
  title = {Genetic variants regulating ORMDL3 expression contribute to the risk
	of childhood asthma},
  journal = {Nature},
  year = {2007},
  volume = {448},
  pages = {470--473},
  number = {7152},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Moller2009,
  author = {Moller, M. and Flachsbart, F. and Till, A. and Thye, T. and Horstmann,
	R. D. and Meyer, C. G. and Osei, I. and van Helden, P. D. and Hoal,
	E. G. and Schreiber, S. and Nebel, A. and Franke, A.},
  title = {A Functional Haplotype in the 3'UTR of TNFRSF1B is Associated with
	TB in Two African Populations},
  journal = {Am J Respir Crit Care Med},
  year = {2009},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Monneret2008,
  author = {Monneret, G. and Venet, F. and Pachot, A. and Lepape, A.},
  title = {Monitoring immune dysfunctions in the septic patient: a new skin
	for the old ceremony},
  journal = {Mol Med},
  year = {2008},
  volume = {14},
  pages = {64--78},
  number = {1-2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Montfrans2012,
  author = {van Montfrans, J. M. and Hoepelman, A. I. and Otto, S. and van Gijn,
	M. and van de Corput, L. and de Weger, R. A. and Monaco-Shawver,
	L. and Banerjee, P. P. and Sanders, E. A. and Jol-van der Zijde,
	C. M. and Betts, M. R. and Orange, J. S. and Bloem, A. C. and Tesselaar,
	K.},
  title = {CD27 deficiency is associated with combined immunodeficiency and
	persistent symptomatic EBV viremia},
  journal = {J Allergy Clin Immunol},
  year = {2012},
  volume = {129},
  pages = {787--793e786},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Moreau2012,
  author = {Moreau, Y. and Tranchevent, L. C.},
  title = {Computational tools for prioritizing candidate genes: boosting disease
	gene discovery},
  journal = {Nat Rev Genet},
  year = {2012},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Morley2004,
  author = {Morley, Michael and Molony, Cliona M. and Weber, Teresa M. and Devlin,
	James L. and Ewens, Kathryn G. and Spielman, Richard S. and Cheung,
	Vivian G.},
  title = {Genetic analysis of genome-wide variation in human gene expression},
  journal = {Nature},
  year = {2004},
  volume = {430},
  pages = {743--747},
  number = {7001},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Mueller1997,
  author = {Mueller, C. G. and Rissoan, M. C. and Salinas, B. and Ait-Yahia,
	S. and Ravel, O. and Bridon, J. M. and Briere, F. and Lebecque, S.
	and Liu, Y. J.},
  title = {Polymerase chain reaction selects a novel disintegrin proteinase
	from CD40-activated germinal center dendritic cells},
  journal = {J Exp Med},
  year = {1997},
  volume = {186},
  pages = {655-663},
  number = {5}
}

@ARTICLE{Mukai2009,
  author = {Mukai, Y and Nakamura, T and Yoshioka, Y and Tsunoda, S and Kamada,
	H and Nakagawa, S and Yamagata, Y and Tsutsumi, Y},
  title = {Crystallization and preliminary X-ray analysis of the tumour necrosis
	factor α–tumour necrosis factor receptor type 2 complex},
  journal = {Acta Crystallographica Section F: Structural Biology and Crystallization
	Communications},
  year = {2009},
  volume = {65},
  pages = {295--298},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Mullin2008,
  author = {Mullin, B. H. and Prince, R. L. and Dick, I. M. and Islam, F. M.
	and Hart, D. J. and Spector, T. D. and Devine, A. and Dudbridge,
	F. and Wilson, S. G.},
  title = {Bone structural effects of variation in the TNFRSF1B gene encoding
	the tumor necrosis factor receptor 2},
  journal = {Osteoporos Int},
  year = {2008},
  volume = {19},
  pages = {961--968},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@BOOK{Murphy2008,
  title = {Janeway's Immunobiology},
  publisher = {Garland Science},
  year = {2008},
  author = {Murphy, Kenneth and Travers, Paul and Walport, Mark},
  address = {Abingdon},
  edition = {7},
  owner = {edavenp},
  timestamp = {2014.09.23},
  type = {Book}
}

@ARTICLE{Musunuru2011,
  author = {Musunuru, K.},
  title = {Regulatory elements in noncoding DNA in the chromosome 9p21 locus},
  journal = {Circ Cardiovasc Genet},
  year = {2011},
  volume = {4},
  pages = {330--331},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Musunuru2010,
  author = {Musunuru, K. and Strong, A. and Frank-Kamenetsky, M. and Lee, N.
	E. and Ahfeldt, T. and Sachs, K. V. and Li, X. and Li, H. and Kuperwasser,
	N. and Ruda, V. M. and Pirruccello, J. P. and Muchmore, B. and Prokunina-Olsson,
	L. and Hall, J. L. and Schadt, E. E. and Morales, C. R. and Lund-Katz,
	S. and Phillips, M. C. and Wong, J. and Cantley, W. and Racie, T.
	and Ejebe, K. G. and Orho-Melander, M. and Melander, O. and Koteliansky,
	V. and Fitzgerald, K. and Krauss, R. M. and Cowan, C. A. and Kathiresan,
	S. and Rader, D. J.},
  title = {From noncoding variant to phenotype via SORT1 at the 1p13 cholesterol
	locus},
  journal = {Nature},
  year = {2010},
  volume = {466},
  pages = {714--719},
  number = {7307},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Nakada2011,
  author = {Nakada, S.},
  title = {Abnormalities in DNA double-strand break response beyond primary
	immunodeficiency},
  journal = {Int J Hematol},
  year = {2011},
  volume = {93},
  pages = {425--433},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Nakaya2011,
  author = {Nakaya, H. I. and Wrammert, J. and Lee, E. K. and Racioppi, L. and
	Marie-Kunze, S. and Haining, W. N. and Means, A. R. and Kasturi,
	S. P. and Khan, N. and Li, G. M. and McCausland, M. and Kanchan,
	V. and Kokko, K. E. and Li, S. and Elbein, R. and Mehta, A. K. and
	Aderem, A. and Subbarao, K. and Ahmed, R. and Pulendran, B.},
  title = {Systems biology of vaccination for seasonal influenza in humans.},
  journal = {Nat Immunol},
  year = {2011},
  volume = {12},
  pages = {786--795},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Namath2011,
  author = {Namath, A. and Patterson, A. J.},
  title = {Genetic polymorphisms in sepsis},
  journal = {Crit Care Nurs Clin North Am},
  year = {2011},
  volume = {23},
  pages = {181-202},
  number = {1}
}

@ARTICLE{Namath2009,
  author = {Namath, A. and Patterson, A. J.},
  title = {Genetic polymorphisms in sepsis},
  journal = {Crit Care Clin},
  year = {2009},
  volume = {25},
  pages = {835-56, x},
  number = {4}
}

@ARTICLE{Nelson2010,
  author = {Nelson, KS and Lewis, DB},
  title = {Adult-onset presentations of genetic immunodeficiencies: genes can
	throw slow curves.},
  journal = {Curr Opin Infect Dis},
  year = {2010},
  volume = {23},
  pages = {359--364},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ng2008,
  author = {Ng, P. C. and Levy, S. and Huang, J. and Stockwell, T. B. and Walenz,
	B. P. and Li, K. and Axelrod, N. and Busam, D. A. and Strausberg,
	R. L. and Venter, J. C.},
  title = {Genetic variation in an individual human exome.},
  journal = {PLoS Genet},
  year = {2008},
  volume = {4},
  pages = {e1000160},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ng2010,
  author = {Ng, S. B. and Bigham, A. W. and Buckingham, K. J. and Hannibal, M.
	C. and McMillin, M. J. and Gildersleeve, H. I. and Beck, A. E. and
	Tabor, H. K. and Cooper, G. M. and Mefford, H. C. and Lee, C. and
	Turner, E. H. and Smith, J. D. and Rieder, M. J. and Yoshiura, K.
	and Matsumoto, N. and Ohta, T. and Niikawa, N. and Nickerson, D.
	A. and Bamshad, M. J. and Shendure, J.},
  title = {Exome sequencing identifies MLL2 mutations as a cause of Kabuki syndrome.},
  journal = {Nat Genet},
  year = {2010},
  volume = {42},
  pages = {790--793},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ng2010a,
  author = {Ng, S. B. and Buckingham, K. J. and Lee, C. and Bigham, A. W. and
	Tabor, H. K. and Dent, K. M. and Huff, C. D. and Shannon, P. T. and
	Jabs, E. W. and Nickerson, D. A. and Shendure, J. and Bamshad, M.
	J.},
  title = {Exome sequencing identifies the cause of a mendelian disorder.},
  journal = {Nat Genet},
  year = {2010},
  volume = {42},
  pages = {30--35},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ng2009,
  author = {Ng, S. B. and Turner, E. H. and Robertson, P. D. and Flygare, S.
	D. and Bigham, A. W. and Lee, C. and Shaffer, T. and Wong, M. and
	Bhattacharjee, A. and Eichler, E. E. and Bamshad, M. and Nickerson,
	D. A. and Shendure, J.},
  title = {Targeted capture and massively parallel sequencing of 12 human exomes.},
  journal = {Nature},
  year = {2009},
  volume = {461},
  pages = {272--276},
  number = {7261},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ng2011,
  author = {Ng, W. F. and Tudhope, S. J. and von Delwig, A. and Lilic, D.},
  title = {Invariant natural killer T (iNKT) cell deficiency in chronic mucocutaneous
	candidiasis--a consequence or a cause?},
  journal = {Immunol Lett},
  year = {2011},
  volume = {135},
  pages = {180--183},
  number = {1-2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Nica2013,
  author = {Nica, A. C. and Dermitzakis, E. T.},
  title = {Expression quantitative trait loci: present and future},
  journal = {Philos Trans R Soc Lond B Biol Sci},
  year = {2013},
  volume = {368},
  pages = {20120362},
  number = {1620}
}

@ARTICLE{Nica2010,
  author = {Nica, A. C. and Montgomery, S. B. and Dimas, A. S. and Stranger,
	B. E. and Beazley, C. and Barroso, I. and Dermitzakis, E. T.},
  title = {Candidate causal regulatory effects by integration of expression
	QTLs with complex trait genetic associations},
  journal = {PLoS Genet},
  year = {2010},
  volume = {6},
  pages = {e1000895},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Nica2011,
  author = {Nica, A. C. and Parts, L. and Glass, D. and Nisbet, J. and Barrett,
	A. and Sekowska, M. and Travers, M. and Potter, S. and Grundberg,
	E. and Small, K. and Hedman, A. K. and Bataille, V. and Tzenova Bell,
	J. and Surdulescu, G. and Dimas, A. S. and Ingle, C. and Nestle,
	F. O. and di Meglio, P. and Min, J. L. and Wilk, A. and Hammond,
	C. J. and Hassanali, N. and Yang, T. P. and Montgomery, S. B. and
	O'Rahilly, S. and Lindgren, C. M. and Zondervan, K. T. and Soranzo,
	N. and Barroso, I. and Durbin, R. and Ahmadi, K. and Deloukas, P.
	and McCarthy, M. I. and Dermitzakis, E. T. and Spector, T. D. and
	Mu, Ther Consortium},
  title = {The architecture of gene regulatory variation across multiple human
	tissues: the MuTHER study},
  journal = {PLoS Genet},
  year = {2011},
  volume = {7},
  pages = {e1002003},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Nicolae2010,
  author = {Nicolae, D. L. and Gamazon, E. and Zhang, W. and Duan, S. and Dolan,
	M. E. and Cox, N. J.},
  title = {Trait-associated SNPs are more likely to be eQTLs: annotation to
	enhance discovery from GWAS},
  journal = {PLoS Genet},
  year = {2010},
  volume = {6},
  pages = {e1000888},
  number = {4}
}

@ARTICLE{Nomura2000,
  author = {Nomura, F and Akashi, S and Sakao, Y and Sato, S and Kawai, T and
	Matsumoto, M and Nakanishi, K and Kimoto, M and Miyake, K and Takeda,
	K and Akira, S},
  title = {Cutting Edge: Endotoxin Tolerance in Mouse Peritoneal Macrophages
	Correlates with Down-Regulation of Surface Toll-Like Receptor 4 Expression},
  journal = {J Immunol},
  year = {2000},
  volume = {164},
  pages = {3476--3479},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Nookaew2012,
  author = {Nookaew, I. and Papini, M. and Pornputtapong, N. and Scalcinati,
	G. and Fagerberg, L. and Uhlen, M. and Nielsen, J.},
  title = {A comprehensive comparison of RNA-Seq-based transcriptome analysis
	from reads to differential gene expression and cross-comparison with
	microarrays: a case study in Saccharomyces cerevisiae},
  journal = {Nucleic Acids Res},
  year = {2012},
  volume = {40},
  pages = {10084--10097},
  number = {20},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Notarangelo2010,
  author = {Notarangelo, LD},
  title = {Primary immunodeficiencies.},
  journal = {J Allergy Clin Immunol},
  year = {2010},
  volume = {125},
  pages = {S182--194},
  number = {2 Suppl 2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Novik2002,
  author = {Novik, K. L. and Nimmrich, I. and Genc, B. and Maier, S. and Piepenbrock,
	C. and Olek, A. and Beck, S.},
  title = {Epigenomics: genome-wide study of methylation phenomena},
  journal = {Curr Issues Mol Biol},
  year = {2002},
  volume = {4},
  pages = {111--128},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{OKeefe2002,
  author = {O'Keefe, GE and Hybki, DL and Munford, RS},
  title = {The G-->A single nucleotide polymorphism at the -308 position in
	the tumor necrosis factor-alpha promoter increases the risk for severe
	sepsis after trauma.},
  journal = {J Trauma},
  year = {2002},
  volume = {52},
  pages = {817--825; discussion825--816},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{ONeill2007,
  author = {O'Neill, Luke A. J. and Bowie, Andrew G.},
  title = {The family of five: TIR-domain-containing adaptors in Toll-like receptor
	signalling},
  journal = {Nat Rev Immunol},
  year = {2007},
  volume = {7},
  pages = {353--364},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Obel2010,
  author = {Obel, N. and Christensen, K. and Petersen, I. and Sorensen, T. I.
	and Skytthe, A.},
  title = {Genetic and environmental influences on risk of death due to infections
	assessed in Danish twins, 1943-2001},
  journal = {Am J Epidemiol},
  year = {2010},
  volume = {171},
  pages = {1007--1013},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Oestreich2012,
  author = {Oestreich, K. J. and Weinmann, A. S.},
  title = {Transcriptional mechanisms that regulate T helper 1 cell differentiation},
  journal = {Curr Opin Immunol},
  year = {2012},
  volume = {24},
  pages = {191--195},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Offer2010,
  author = {Offer, S. M. and Pan-Hammarstrom, Q. and Hammarstrom, L. and Harris,
	R. S.},
  title = {Unique {DNA} repair gene variations and potential associations with
	the primary antibody deficiency syndromes IgAD and CVID},
  journal = {PLoS One},
  year = {2010},
  volume = {5},
  pages = {e12260},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Ohm-Laursen2005,
  author = {Ohm-Laursen, L. and Schjebel, L. and Jacobsen, K. and Permin, H.
	and Svejgaard, A. and Barington, T.},
  title = {Normal ICOS, ICOSL and AID alleles in Danish patients with common
	variable immunodeficiency},
  journal = {Scand J Immunol},
  year = {2005},
  volume = {61},
  pages = {566--574},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Okada2014,
  author = {Okada, Y. and Wu, D. and Trynka, G. and Raj, T. and Terao, C. and
	Ikari, K. and Kochi, Y. and Ohmura, K. and Suzuki, A. and Yoshida,
	S. and Graham, R. R. and Manoharan, A. and Ortmann, W. and Bhangale,
	T. and Denny, J. C. and Carroll, R. J. and Eyler, A. E. and Greenberg,
	J. D. and Kremer, J. M. and Pappas, D. A. and Jiang, L. and Yin,
	J. and Ye, L. and Su, D. F. and Yang, J. and Xie, G. and Keystone,
	E. and Westra, H. J. and Esko, T. and Metspalu, A. and Zhou, X. and
	Gupta, N. and Mirel, D. and Stahl, E. A. and Diogo, D. and Cui, J.
	and Liao, K. and Guo, M. H. and Myouzen, K. and Kawaguchi, T. and
	Coenen, M. J. and van Riel, P. L. and van de Laar, M. A. and Guchelaar,
	H. J. and Huizinga, T. W. and Dieude, P. and Mariette, X. and Bridges,
	S. L., Jr. and Zhernakova, A. and Toes, R. E. and Tak, P. P. and
	Miceli-Richard, C. and Bang, S. Y. and Lee, H. S. and Martin, J.
	and Gonzalez-Gay, M. A. and Rodriguez-Rodriguez, L. and Rantapaa-Dahlqvist,
	S. and Arlestig, L. and Choi, H. K. and Kamatani, Y. and Galan, P.
	and Lathrop, M. and consortium, Raci and consortium, Garnet and Eyre,
	S. and Bowes, J. and Barton, A. and de Vries, N. and Moreland, L.
	W. and Criswell, L. A. and Karlson, E. W. and Taniguchi, A. and Yamada,
	R. and Kubo, M. and Liu, J. S. and Bae, S. C. and Worthington, J.
	and Padyukov, L. and Klareskog, L. and Gregersen, P. K. and Raychaudhuri,
	S. and Stranger, B. E. and De Jager, P. L. and Franke, L. and Visscher,
	P. M. and Brown, M. A. and Yamanaka, H. and Mimori, T. and Takahashi,
	A. and Xu, H. and Behrens, T. W. and Siminovitch, K. A. and Momohara,
	S. and Matsuda, F. and Yamamoto, K. and Plenge, R. M.},
  title = {Genetics of rheumatoid arthritis contributes to biology and drug
	discovery},
  journal = {Nature},
  year = {2014},
  volume = {506},
  pages = {376-81},
  number = {7488}
}

@ARTICLE{Olerup1992,
  author = {Olerup, O. and Smith, C. I. and Bjorkander, J. and Hammarstrom, L.},
  title = {Shared HLA class II-associated genetic susceptibility and resistance,
	related to the HLA-DQB1 gene, in IgA deficiency and common variable
	immunodeficiency},
  journal = {Proc Natl Acad Sci U S A},
  year = {1992},
  volume = {89},
  pages = {10653--10657},
  number = {22},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ombrello2012,
  author = {Ombrello, M. J. and Remmers, E. F. and Sun, G. and Freeman, A. F.
	and Datta, S. and Torabi-Parizi, P. and Subramanian, N. and Bunney,
	T. D. and Baxendale, R. W. and Martins, M. S. and Romberg, N. and
	Komarow, H. and Aksentijevich, I. and Kim, H. S. and Ho, J. and Cruse,
	G. and Jung, M. Y. and Gilfillan, A. M. and Metcalfe, D. D. and Nelson,
	C. and O'Brien, M. and Wisch, L. and Stone, K. and Douek, D. C. and
	Gandhi, C. and Wanderer, A. A. and Lee, H. and Nelson, S. F. and
	Shianna, K. V. and Cirulli, E. T. and Goldstein, D. B. and Long,
	E. O. and Moir, S. and Meffre, E. and Holland, S. M. and Kastner,
	D. L. and Katan, M. and Hoffman, H. M. and Milner, J. D.},
  title = {Cold urticaria, immunodeficiency, and autoimmunity related to PLCG2
	deletions},
  journal = {N Engl J Med},
  year = {2012},
  volume = {366},
  pages = {330--338},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Opal2013,
  author = {Opal, S. M. and Laterre, P. F. and Francois, B. and LaRosa, S. P.
	and Angus, D. C. and Mira, J. P. and Wittebole, X. and Dugernier,
	T. and Perrotin, D. and Tidswell, M. and Jauregui, L. and Krell,
	K. and Pachl, J. and Takahashi, T. and Peckelsen, C. and Cordasco,
	E. and Chang, C. S. and Oeyen, S. and Aikawa, N. and Maruyama, T.
	and Schein, R. and Kalil, A. C. and Van Nuffelen, M. and Lynn, M.
	and Rossignol, D. P. and Gogate, J. and Roberts, M. B. and Wheeler,
	J. L. and Vincent, J. L. and Group, Access Study},
  title = {Effect of eritoran, an antagonist of MD2-TLR4, on mortality in patients
	with severe sepsis: the {AC}CESS randomized trial},
  journal = {JAMA},
  year = {2013},
  volume = {309},
  pages = {1154--1162},
  number = {11},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Orange2011,
  author = {Orange, J. S. and Glessner, J. T. and Resnick, E. and Sullivan, K.
	E. and Lucas, M. and Ferry, B. and Kim, C. E. and Hou, C. and Wang,
	F. and Chiavacci, R. and Kugathasan, S. and Sleasman, J. W. and Baldassano,
	R. and Perez, E. E. and Chapel, H. and Cunningham-Rundles, C. and
	Hakonarson, H.},
  title = {Genome-wide association identifies diverse causes of common variable
	immunodeficiency},
  journal = {J Allergy Clin Immunol},
  year = {2011},
  volume = {127},
  pages = {1360--1367e1366},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Oshlack2010,
  author = {Oshlack, A. and Robinson, M. D. and Young, M. D.},
  title = {From RNA-seq reads to differential expression results},
  journal = {Genome Biol},
  year = {2010},
  volume = {11},
  pages = {220},
  number = {12}
}

@ARTICLE{PA�rezdeDiego2010,
  author = {Pérez de Diego, R and Sancho-Shimizu, V and Lorenzo, L and Puel,
	A and Plancoulaine, S and Picard, C and Herman, M and Cardon, A and
	Durandy, A and Bustamante, J and Vallabhapurapu, S and Bravo, J and
	Warnatz, K and Chaix, Y and Cascarrigny, F and Lebon, P and Rozenberg,
	F and Karin, M and Tardieu, M and Al-Muhsen, S and Jouanguy, E and
	Zhang, SY and Abel, L and Casanova, JL},
  title = {Human TRAF3 adaptor molecule deficiency leads to impaired Toll-like
	receptor 3 response and susceptibility to herpes simplex encephalitis.},
  journal = {Immunity},
  year = {2010},
  volume = {33},
  pages = {400--411},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Packwood2010,
  author = {Packwood, K. and Drewe, E. and Staples, E. and Webster, D. and Witte,
	T. and Litzman, J. and Egner, W. and Sargur, R. and Sewell, W. and
	Lopez-Granados, E. and Seneviratne, S. L. and Powell, R. J. and Ferry,
	B. L. and Chapel, H. M.},
  title = {NOD2 polymorphisms in clinical phenotypes of common variable immunodeficiency
	disorders},
  journal = {Clin Exp Immunol},
  year = {2010},
  volume = {161},
  pages = {536-41},
  number = {3}
}

@ARTICLE{Padkin2003,
  author = {Padkin, A. and Goldfrad, C. and Brady, A. R. and Young, D. and Black,
	N. and Rowan, K.},
  title = {Epidemiology of severe sepsis occurring in the first 24 hrs in intensive
	care units in England, Wales, and Northern Ireland},
  journal = {Crit Care Med},
  year = {2003},
  volume = {31},
  pages = {2332--2338},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Pampin2007,
  author = {Pampin, S. and Rodriguez-Rey, J. C.},
  title = {Functional analysis of regulatory single-nucleotide polymorphisms},
  journal = {Curr Opin Lipidol},
  year = {2007},
  volume = {18},
  pages = {194--198},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Pan-Hammarstrom2007,
  author = {Pan-Hammarstrom, Q. and Salzer, U. and Du, L. and Bjorkander, J.
	and Cunningham-Rundles, C. and Nelson, D. L. and Bacchelli, C. and
	Gaspar, H. B. and Offer, S. and Behrens, T. W. and Grimbacher, B.
	and Hammarstrom, L.},
  title = {Reexamining the role of TACI coding variants in common variable immunodeficiency
	and selective IgA deficiency},
  journal = {Nat Genet},
  year = {2007},
  volume = {39},
  pages = {429--430},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Park2008,
  author = {Park, M. A. and Li, J. T. and Hagan, J. B. and Maddox, D. E. and
	Abraham, R. S.},
  title = {Common variable immunodeficiency: a new look at an old disease},
  journal = {Lancet},
  year = {2008},
  volume = {372},
  pages = {489-502},
  number = {9637}
}

@ARTICLE{Parkes2013,
  author = {Parkes, M. and Cortes, A. and van Heel, D. A. and Brown, M. A.},
  title = {Genetic insights into common pathways and complex relationships among
	immune-mediated diseases},
  journal = {Nat Rev Genet},
  year = {2013},
  volume = {14},
  pages = {661--673},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Pauwels1994,
  author = {Pauwels, M. and van Weyenbergh, J. and Soumillion, A. and Proost,
	P. and De Ley, M.},
  title = {Induction by zinc of specific metallothionein isoforms in human monocytes},
  journal = {Eur J Biochem},
  year = {1994},
  volume = {220},
  pages = {105-110},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Payen2008,
  author = {Payen, D. and Lukaszewicz, A. C. and Belikova, I. and Faivre, V.
	and Gelin, C. and Russwurm, S. and Launay, J. M. and Sevenet, N.},
  title = {Gene profiling in human blood leucocytes during recovery from septic
	shock},
  journal = {Intensive Care Med},
  year = {2008},
  volume = {34},
  pages = {1371--1376},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Phua2013,
  author = {Phua, J. and Ngerng, W. and See, K. and Tay, C. and Kiong, T. and
	Lim, H. and Chew, M. and Yip, H. and Tan, A. and Khalizah, H. and
	Capistrano, R. and Lee, K. and Mukhopadhyay, A.},
  title = {Characteristics and outcomes of culture-negative versus culture-positive
	severe sepsis},
  journal = {Crit Care},
  year = {2013},
  volume = {17},
  pages = {R202},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Picard2014,
  author = {Picard, C. and Fischer, A.},
  title = {Contribution of high-throughput DNA sequencing to the study of primary
	immunodeficiencies},
  journal = {Eur J Immunol},
  year = {2014}
}

@ARTICLE{Pieper2014,
  author = {Pieper, K. and Rizzi, M. and Speletas, M. and Smulski, C. R. and
	Sic, H. and Kraus, H. and Salzer, U. and Fiala, G. J. and Schamel,
	W. W. and Lougaris, V. and Plebani, A. and Hammarstrom, L. and Recher,
	M. and Germenis, A. E. and Grimbacher, B. and Warnatz, K. and Rolink,
	A. G. and Schneider, P. and Notarangelo, L. D. and Eibel, H.},
  title = {A common single nucleotide polymorphism impairs B-cell activating
	factor receptor's multimerization, contributing to common variable
	immunodeficiency},
  journal = {J Allergy Clin Immunol},
  year = {2014},
  volume = {133},
  pages = {1222--1225},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Platt2014,
  author = {Platt, C. and Geha, R. S. and Chou, J.},
  title = {Gene hunting in the genomic era: Approaches to diagnostic dilemmas
	in patients with primary immunodeficiencies},
  journal = {J Allergy Clin Immunol},
  year = {2014},
  volume = {134},
  pages = {262-8},
  number = {2}
}

@ARTICLE{Poll2008,
  author = {van der Poll, T. and Opal, S. M.},
  title = {Host-pathogen interactions in sepsis.},
  journal = {Lancet Infect Dis},
  year = {2008},
  volume = {8},
  pages = {32--43},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Poodt2009,
  author = {Poodt, A. E. and Driessen, G. J. and de Klein, A. and van Dongen,
	J. J. and van der Burg, M. and de Vries, E.},
  title = {TACI mutations and disease susceptibility in patients with common
	variable immunodeficiency},
  journal = {Clin Exp Immunol},
  year = {2009},
  volume = {156},
  pages = {35--39},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Poole2012,
  author = {Poole, D. and Bertolini, G. and Garattini, S.},
  title = {Withdrawal of 'Xigris' from the market: old and new lessons},
  journal = {J Epidemiol Community Health},
  year = {2012},
  volume = {66},
  pages = {571-2},
  number = {7}
}

@ARTICLE{Preininger2013,
  author = {Preininger, M. and Arafat, D. and Kim, J. and Nath, A. P. and Idaghdour,
	Y. and Brigham, K. L. and Gibson, G.},
  title = {Blood-informative transcripts define nine common axes of peripheral
	blood gene expression},
  journal = {PLoS Genet},
  year = {2013},
  volume = {9},
  pages = {e1003362},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Pritchard2002,
  author = {Pritchard, J. K. and Cox, N. J.},
  title = {The allelic architecture of human disease genes: common disease-common
	variant...or not?},
  journal = {Hum Mol Genet},
  year = {2002},
  volume = {11},
  pages = {2417--2423},
  number = {20},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Prokunina2004,
  author = {Prokunina, L and Alarcon-Riquelme, M},
  title = {Regulatory SNPs in complex diseases: their identification and functional
	validation},
  journal = {Expert Rev Mol Med},
  year = {2004},
  volume = {6},
  pages = {1--15},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Pruitt2014,
  author = {Pruitt, K. D. and Brown, G. R. and Hiatt, S. M. and Thibaud-Nissen,
	F. and Astashyn, A. and Ermolaeva, O. and Farrell, C. M. and Hart,
	J. and Landrum, M. J. and McGarvey, K. M. and Murphy, M. R. and O'Leary,
	N. A. and Pujar, S. and Rajput, B. and Rangwala, S. H. and Riddick,
	L. D. and Shkeda, A. and Sun, H. and Tamez, P. and Tully, R. E. and
	Wallin, C. and Webb, D. and Weber, J. and Wu, W. and DiCuccio, M.
	and Kitts, P. and Maglott, D. R. and Murphy, T. D. and Ostell, J.
	M.},
  title = {RefSeq: an update on mammalian reference sequences},
  journal = {Nucleic Acids Res},
  year = {2014},
  volume = {42},
  pages = {D756-D763},
  number = {Database issue},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Puck1993,
  author = {Puck, J. M. and Deschenes, S. M. and Porter, J. C. and Dutra, A.
	S. and Brown, C. J. and Willard, H. F. and Henthorn, P. S.},
  title = {The interleukin-2 receptor gamma chain maps to Xq13.1 and is mutated
	in X-linked severe combined immunodeficiency, {SC}IDX1},
  journal = {Hum Mol Genet},
  year = {1993},
  volume = {2},
  pages = {1099--1104},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Puel2011,
  author = {Puel, A. and Cypowyj, S. and Bustamante, J. and Wright, J. F. and
	Liu, L. and Lim, H. K. and Migaud, M. and Israel, L. and Chrabieh,
	M. and Audry, M. and Gumbleton, M. and Toulon, A. and Bodemer, C.
	and El-Baghdadi, J. and Whitters, M. and Paradis, T. and Brooks,
	J. and Collins, M. and Wolfman, N. M. and Al-Muhsen, S. and Galicchio,
	M. and Abel, L. and Picard, C. and Casanova, J. L.},
  title = {Chronic mucocutaneous candidiasis in humans with inborn errors of
	interleukin-17 immunity.},
  journal = {Science},
  year = {2011},
  volume = {332},
  pages = {65--68},
  number = {6025},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Puel2010,
  author = {Puel, A and Döffinger, R and Natividad, A and Chrabieh, M and Barcenas-Morales,
	G and Picard, C and Cobat, A and Ouachée-Chardin, M and Toulon,
	A and Bustamante, J and Al-Muhsen, S and Al-Owain, M and Arkwright,
	PD and Costigan, C and McConnell, V and Cant, AJ and Abinun, M and
	Polak, M and Bougnères, PF and Kumararatne, D and Marodi, L and
	Nahum, A and Roifman, C and Blanche, S and Fischer, A and Bodemer,
	C and Abel, L and Lilic, D and Casanova, JL},
  title = {Autoantibodies against IL-17A, IL-17F, and IL-22 in patients with
	chronic mucocutaneous candidiasis and autoimmune polyendocrine syndrome
	type I.},
  journal = {J Exp Med},
  year = {2010},
  volume = {207},
  pages = {291--297},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Puel2010a,
  author = {Puel, A and Picard, C and Cypowyj, S and Lilic, D and Abel, L and
	Casanova, JL},
  title = {Inborn errors of mucocutaneous immunity to Candida albicans in humans:
	a role for IL-17 cytokines?},
  journal = {Curr Opin Immunol},
  year = {2010},
  volume = {22},
  pages = {467--474},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Puente2011,
  author = {Puente, X. S. and Quesada, V. and Osorio, F. G. and Cabanillas, R.
	and Cadiñanos, J. and Fraile, J. M. and Ordóñez, G. R. and Puente,
	D. A. and Gutiérrez-Fernández, A. and Fanjul-Fernández, M. and
	Lévy, N. and Freije, J. M. and López-Otín, C.},
  title = {Exome Sequencing and Functional Analysis Identifies BANF1 Mutation
	as the Cause of a Hereditary Progeroid Syndrome.},
  journal = {Am J Hum Genet},
  year = {2011},
  volume = {88},
  pages = {650--656},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Puga2005,
  author = {Puga, I. and Lainez, B. and Fernandez-Real, J. M. and Buxade, M.
	and Broch, M. and Vendrell, J. and Espel, E.},
  title = {A polymorphism in the 3' untranslated region of the gene for tumor
	necrosis factor receptor 2 modulates reporter gene expression},
  journal = {Endocrinology},
  year = {2005},
  volume = {146},
  pages = {2210--2220},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Purcell2007,
  author = {Purcell, S. and Neale, B. and Todd-Brown, K. and Thomas, L. and Ferreira,
	M. A. and Bender, D. and Maller, J. and Sklar, P. and de Bakker,
	P. I. and Daly, M. J. and Sham, P. C.},
  title = {PLINK: a tool set for whole-genome association and population-based
	linkage analyses},
  journal = {Am J Hum Genet},
  year = {2007},
  volume = {81},
  pages = {559--575},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Qin2003,
  author = {Qin, H. and Yamada, M. and Tian, L. and Stewart, D. M. and Gulino,
	A. V. and Nelson, D. L.},
  title = {Tracking gene expression in primary immunodeficiencies},
  journal = {Curr Opin Allergy Clin Immunol},
  year = {2003},
  volume = {3},
  pages = {437-42},
  number = {6}
}

@ARTICLE{Qin2008,
  author = {Qin, Y. and Cheng, C. and Wang, H. and Shao, X. and Gao, Y. and Shen,
	A.},
  title = {TNF-alpha as an autocrine mediator and its role in the activation
	of Schwann cells},
  journal = {Neurochem Res},
  year = {2008},
  volume = {33},
  pages = {1077--1084},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Qureshi2013,
  author = {Qureshi, R. and Sacan, A.},
  title = {A novel method for the normalization of microRNA RT-PCR data},
  journal = {BMC Med Genomics},
  year = {2013},
  volume = {6 Suppl 1},
  pages = {S14},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@PHDTHESIS{Radhakrishnan2012,
  author = { Radhakrishnan, J.},
  title = {Functional Genomics of Severe Sepsis and Septic Shock},
  school = {University of Oxford},
  year = {2012},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Raetz2002,
  author = {Raetz, C. R. and Whitfield, C.},
  title = {Lipopolysaccharide endotoxins},
  journal = {Annu Rev Biochem},
  year = {2002},
  volume = {71},
  pages = {635--700},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Raghavachari2009,
  author = {Raghavachari, N. and Xu, X. and Munson, P. J. and Gladwin, M. T.},
  title = {Characterization of whole blood gene expression profiles as a sequel
	to globin mRNA reduction in patients with sickle cell disease},
  journal = {PLoS One},
  year = {2009},
  volume = {4},
  pages = {e6484},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Rahmatallah2014,
  author = {Rahmatallah, Y. and Emmert-Streib, F. and Glazko, G.},
  title = {Gene Sets Net Correlations Analysis (GSNCA): a multivariate differential
	coexpression test for gene sets},
  journal = {Bioinformatics},
  year = {2014},
  volume = {30},
  pages = {360--368},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ramilo2007,
  author = {Ramilo, O. and Allman, W. and Chung, W. and Mejias, A. and Ardura,
	M. and Glaser, C. and Wittkowski, K. M. and Piqueras, B. and Banchereau,
	J. and Palucka, A. K. and Chaussabel, D.},
  title = {Gene expression patterns in blood leukocytes discriminate patients
	with acute infections},
  journal = {Blood},
  year = {2007},
  volume = {109},
  pages = {2066--2077},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Ramsuran2011,
  author = {Ramsuran, V. and Kulkarni, H. and He, W. and Mlisana, K. and Wright,
	E. J. and Werner, L. and Castiblanco, J. and Dhanda, R. and Le, T.
	and Dolan, M. J. and Guan, W. and Weiss, R. A. and Clark, R. A. and
	Karim, S. S. and Ahuja, S. K. and Ndung'u, T.},
  title = {Duffy-null-associated low neutrophil counts influence HIV-1 susceptibility
	in high-risk South African black women},
  journal = {Clin Infect Dis},
  year = {2011},
  volume = {52},
  pages = {1248--1256},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Randow1995,
  author = {Randow, F and Syrbe, U and Meisel, C and Krausch, D and Zuckermann,
	H and Platzer, C and Volk, HD},
  title = {Mechanism of endotoxin desensitization: involvement of interleukin
	10 and transforming growth factor beta},
  journal = {J Exp Med},
  year = {1995},
  volume = {181},
  pages = {1887--1892},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Rautanen,
  author = {Rautanen, A and Mills, T. C. and Gordon, A. C. and Hutton, P. and
	Steffens, M. and Nuamah, R. and Chiche, J-D. and Parks, T. and Chapman,
	S. J. and Davenport, E. E. and Elliott, K. S. and Bion, J. and Lichtner,
	P. and Meitinger, T. and Wienker, T. F. and Caulfield, M. J. and
	Mein, C. and Bloos, F. and Bobek, I. and Cotogni, P. and Sramek,
	V. and Sarapuu, S. and Kobilay, M. and Ranieri, M. and Rello, J.
	and Sirgo, G. and Weiss, Y. G. and Russwurm, S. and Schneider, M.
	and Reinhart, K. and Holloway, P. A. and Knight, J. and Garrard,
	C. S. and Russell, J. A. and Walley, K. R. and St\"{u}ber, F. and
	Hill, A. V. and Hinds, C. J.},
  title = {Genome-wide association study of survival from sepsis due to pneumonia: an observational cohort study},
  journal = {Lancet Respiratory Medicine},
  year = {2015},
  volume={3},
  pages={53--60}
}

@ARTICLE{Raychaudhuri2011,
  author = {Raychaudhuri, S.},
  title = {Mapping rare and common causal alleles for complex human diseases},
  journal = {Cell},
  year = {2011},
  volume = {147},
  pages = {57--69},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@MANUAL{Team2013,
  title = {R: A language and environment for statistical computing },
  author = {{R Core Team}},
  organization = {R Foundation for Statistical Computing},
  address = {Vienna, Austria},
  year = {2013},
  owner = {edavenp},
  timestamp = {2014.09.23},
  url = {http://www.R-project.org/}
}

@ARTICLE{Read2009,
  author = {Read, RC and Teare, DM and Pridmore, AC and Naylor, SC and Timms,
	JM and Kaczmarski, EB and Borrow, R and Wilson, AG},
  title = {The tumor necrosis factor polymorphism TNF (-308) is associated with
	susceptibility to meningococcal sepsis, but not with lethality.},
  journal = {Crit Care Med},
  year = {2009},
  volume = {37},
  pages = {1237--1243},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Reddy2012,
  author = {Reddy, P. H. and Shirendeb, U. P.},
  title = {Mutant huntingtin, abnormal mitochondrial dynamics, defective axonal
	transport of mitochondria, and selective synaptic degeneration in
	Huntington's disease.},
  journal = {Biochim Biophys Acta},
  year = {2012},
  volume = {1822},
  pages = {101--110},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Reich2001,
  author = {Reich, D. E. and Lander, E. S.},
  title = {On the allelic spectrum of human disease},
  journal = {Trends Genet},
  year = {2001},
  volume = {17},
  pages = {502--510},
  number = {9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Reumers2012,
  author = {Reumers, J. and De Rijk, P. and Zhao, H. and Liekens, A. and Smeets,
	D. and Cleary, J. and Van Loo, P. and Van Den Bossche, M. and Catthoor,
	K. and Sabbe, B. and Despierre, E. and Vergote, I. and Hilbush, B.
	and Lambrechts, D. and Del-Favero, J.},
  title = {Optimized filtering reduces the error rate in detecting genomic variants
	by short-read sequencing},
  journal = {Nat Biotechnol},
  year = {2012},
  volume = {30},
  pages = {61-68},
  number = {1}
}

@ARTICLE{Richards2006,
  author = {Richards, E. J.},
  title = {Inherited epigenetic variation--revisiting soft inheritance},
  journal = {Nat Rev Genet},
  year = {2006},
  volume = {7},
  pages = {395--401},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Rimmer2014,
  author = {Rimmer, A. and Hang, P. and Mathieson, I. and Iqbal, Z. and Twigg,
	S. R. F. and WGS500 Consortium and Wilkie, A. O. M. and McVean, G.
	and Lunter, G.},
  title = {Integrating mapping-, assembly- and haplotype-based approaches for
	calling variants in clinical sequencing applications},
  journal = {Nat Genet},
  year = {2014},
  volume = {46},
  pages = {912--918},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Rittirsch2008,
  author = {Rittirsch, Daniel and Flierl, Michael A. and Ward, Peter A.},
  title = {Harmful molecular mechanisms in sepsis},
  journal = {Nat Rev Immunol},
  year = {2008},
  volume = {8},
  pages = {776--787},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Rivas2011,
  author = {Rivas, M. A. and Beaudoin, M. and Gardet, A. and Stevens, C. and
	Sharma, Y. and Zhang, C. K. and Boucher, G. and Ripke, S. and Ellinghaus,
	D. and Burtt, N. and Fennell, T. and Kirby, A. and Latiano, A. and
	Goyette, P. and Green, T. and Halfvarson, J. and Haritunians, T.
	and Korn, J. M. and Kuruvilla, F. and Lagace, C. and Neale, B. and
	Lo, K. S. and Schumm, P. and Torkvist, L. and National Institute
	of, Diabetes and Digestive Kidney Diseases Inflammatory Bowel Disease
	Genetics, Consortium and United Kingdom Inflammatory Bowel Disease
	Genetics, Consortium and International Inflammatory Bowel Disease
	Genetics, Consortium and Dubinsky, M. C. and Brant, S. R. and Silverberg,
	M. S. and Duerr, R. H. and Altshuler, D. and Gabriel, S. and Lettre,
	G. and Franke, A. and D'Amato, M. and McGovern, D. P. and Cho, J.
	H. and Rioux, J. D. and Xavier, R. J. and Daly, M. J.},
  title = {Deep resequencing of GWAS loci identifies independent rare variants
	associated with inflammatory bowel disease},
  journal = {Nat Genet},
  year = {2011},
  volume = {43},
  pages = {1066--1073},
  number = {11},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Rivera2013,
  author = {Rivera, C. M. and Ren, B.},
  title = {Mapping human epigenomes},
  journal = {Cell},
  year = {2013},
  volume = {155},
  pages = {39-55},
  number = {1}
}

@ARTICLE{Robinson2010,
  author = {Robinson, M. D. and McCarthy, D. J. and Smyth, G. K.},
  title = {edgeR: a Bioconductor package for differential expression analysis
	of digital gene expression data},
  journal = {Bioinformatics},
  year = {2010},
  volume = {26},
  pages = {139--140},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Robinson2010a,
  author = {Robinson, M. D. and Oshlack, A.},
  title = {A scaling normalization method for differential expression analysis
	of RNA-seq data},
  journal = {Genome Biol},
  year = {2010},
  volume = {11},
  pages = {R25},
  number = {3}
}

@ARTICLE{Robson2004,
  author = {Robson, J. D. and Davidson, D. and Veillette, A.},
  title = {Inhibition of the Jun N-terminal protein kinase pathway by SHIP-1,
	a lipid phosphatase that interacts with the adaptor molecule Dok-3},
  journal = {Mol Cell Biol},
  year = {2004},
  volume = {24},
  pages = {2332-2343},
  number = {6}
}

@ARTICLE{Rockman2006,
  author = {Rockman, M. V. and Kruglyak, L.},
  title = {Genetics of global gene expression},
  journal = {Nat Rev Genet},
  year = {2006},
  volume = {7},
  pages = {862-72},
  number = {11}
}

@ARTICLE{Rockman2002,
  author = {Rockman, M. V. and Wray, G. A.},
  title = {Abundant raw material for cis-regulatory evolution in humans},
  journal = {Mol Biol Evol},
  year = {2002},
  volume = {19},
  pages = {1991--2004},
  number = {11},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Rozen2000,
  author = {Rozen, S. and Skaletsky, H.},
  title = {Primer3 on the WWW for general users and for biologist programmers},
  journal = {Methods Mol Biol},
  year = {2000},
  volume = {132},
  pages = {365--386},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Russell2008,
  author = {Russell, J. A. and Walley, K. R. and Singer, J. and Gordon, A. C.
	and Hebert, P. C. and Cooper, D. J. and Holmes, C. L. and Mehta,
	S. and Granton, J. T. and Storms, M. M. and Cook, D. J. and Presneill,
	J. J. and Ayers, D. and Investigators, Vasst},
  title = {Vasopressin versus norepinephrine infusion in patients with septic
	shock},
  journal = {N Engl J Med},
  year = {2008},
  volume = {358},
  pages = {877--887},
  number = {9}
}

@ARTICLE{Ryan2006,
  author = {Ryan, J. and Zoellner, Y. and Gradl, B. and Palache, B. and Medema,
	J.},
  title = {Establishing the health and economic impact of influenza vaccination
	within the European Union 25 countries},
  journal = {Vaccine},
  year = {2006},
  volume = {24},
  pages = {6812--6822},
  number = {47-48},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ryckman2008,
  author = {Ryckman, K. and Williams, S. M.},
  title = {Calculation and use of the Hardy-Weinberg model in association studies},
  journal = {Curr Protoc Hum Genet},
  year = {2008},
  volume = {Chapter 1},
  pages = {Unit 1 18},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sorensen1988,
  author = {S{\o}rensen, T. I. and Nielsen, G. G. and Andersen, P. K. and Teasdale,
	T. W.},
  title = {Genetic and environmental influences on premature death in adult
	adoptees},
  journal = {N Engl J Med},
  year = {1988},
  volume = {318},
  pages = {727--732},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sabeti2002,
  author = {Sabeti, Pardis C. and Reich, David E. and Higgins, John M. and Levine,
	Haninah Z. P. and Richter, Daniel J. and Schaffner, Stephen F. and
	Gabriel, Stacey B. and Platko, Jill V. and Patterson, Nick J. and
	McDonald, Gavin J. and Ackerman, Hans C. and Campbell, Sarah J. and
	Altshuler, David and Cooper, Richard and Kwiatkowski, Dominic and
	Ward, Ryk and Lander, Eric S.},
  title = {Detecting recent positive selection in the human genome from haplotype
	structure},
  journal = {Nature},
  year = {2002},
  volume = {419},
  pages = {832--837},
  number = {6909},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sadler2008,
  author = {Sadler, A. J. and Williams, B. R.},
  title = {Interferon-inducible antiviral effectors},
  journal = {Nat Rev Immunol},
  year = {2008},
  volume = {8},
  pages = {559--568},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{SaintBasile1987,
  author = {de Saint Basile, G. and Arveiler, B. and Oberle, I. and Malcolm,
	S. and Levinsky, R. J. and Lau, Y. L. and Hofker, M. and Debre, M.
	and Fischer, A. and Griscelli, C. and et al.},
  title = {Close linkage of the locus for X chromosome-linked severe combined
	immunodeficiency to polymorphic {DNA} markers in Xq11-q13},
  journal = {Proc Natl Acad Sci U S A},
  year = {1987},
  volume = {84},
  pages = {7576--7579},
  number = {21},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Saint-Vis1998,
  author = {de Saint-Vis, B. and Vincent, J. and Vandenabeele, S. and Vanbervliet,
	B. and Pin, J. J. and Ait-Yahia, S. and Patel, S. and Mattei, M.
	G. and Banchereau, J. and Zurawski, S. and Davoust, J. and Caux,
	C. and Lebecque, S.},
  title = {A novel lysosome-associated membrane glycoprotein, DC-LAMP, induced
	upon DC maturation, is transiently expressed in MHC class II compartment},
  journal = {Immunity},
  year = {1998},
  volume = {9},
  pages = {325-336},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sainz2007,
  author = {Sainz, J and Pérez, E and Hassan, L and Moratalla, A and Romero,
	A and Collado, MD and Jurado, M},
  title = {Variable number of tandem repeats of TNF receptor type 2 promoter
	as genetic biomarker of susceptibility to develop invasive pulmonary
	aspergillosis.},
  journal = {Hum Immunol},
  year = {2007},
  volume = {68},
  pages = {41--50},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Salipante2009,
  author = {Salipante, S. J. and Rojas, M. E. and Korkmaz, B. and Duan, Z. and
	Wechsler, J. and Benson, K. F. and Person, R. E. and Grimes, H. L.
	and Horwitz, M. S.},
  title = {Contributions to neutropenia from PFAAP5 (N4BP2L2), a novel protein
	mediating transcriptional repressor cooperation between Gfi1 and
	neutrophil elastase},
  journal = {Mol Cell Biol},
  year = {2009},
  volume = {29},
  pages = {4394-405},
  number = {16}
}

@ARTICLE{Salzer2009,
  author = {Salzer, U. and Bacchelli, C. and Buckridge, S. and Pan-Hammarstrom,
	Q. and Jennings, S. and Lougaris, V. and Bergbreiter, A. and Hagena,
	T. and Birmelin, J. and Plebani, A. and Webster, A. D. and Peter,
	H. H. and Suez, D. and Chapel, H. and McLean-Tooke, A. and Spickett,
	G. P. and Anover-Sombke, S. and Ochs, H. D. and Urschel, S. and Belohradsky,
	B. H. and Ugrinovic, S. and Kumararatne, D. S. and Lawrence, T. C.
	and Holm, A. M. and Franco, J. L. and Schulze, I. and Schneider,
	P. and Gertz, E. M. and Schaffer, A. A. and Hammarstrom, L. and Thrasher,
	A. J. and Gaspar, H. B. and Grimbacher, B.},
  title = {Relevance of biallelic versus monoallelic TNFRSF13B mutations in
	distinguishing disease-causing from risk-increasing TNFRSF13B variants
	in antibody deficiency syndromes},
  journal = {Blood},
  year = {2009},
  volume = {113},
  pages = {1967-76},
  number = {9}
}

@ARTICLE{Salzer2005,
  author = {Salzer, U. and Chapel, H. M. and Webster, A. D. and Pan-Hammarström,
	Q. and Schmitt-Graeff, A. and Schlesier, M. and Peter, H. H. and
	Rockstroh, J. K. and Schneider, P. and Schäffer, A. A. and Hammarström,
	L. and Grimbacher, B.},
  title = {Mutations in TNFRSF13B encoding TACI are associated with common variable
	immunodeficiency in humans.},
  journal = {Nat Genet},
  year = {2005},
  volume = {37},
  pages = {820--828},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Salzer2004,
  author = {Salzer, U. and Maul-Pavicic, A. and Cunningham-Rundles, C. and Urschel,
	S. and Belohradsky, B. H. and Litzman, J. and Holm, A. and Franco,
	J. L. and Plebani, A. and Hammarstrom, L. and Skrabl, A. and Schwinger,
	W. and Grimbacher, B.},
  title = {ICOS deficiency in patients with common variable immunodeficiency.},
  journal = {Clin Immunol},
  year = {2004},
  volume = {113},
  pages = {234--240},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Salzer2008,
  author = {Salzer, U. and Neumann, C. and Thiel, J. and Woellner, C. and Pan-Hammarström,
	Q. and Lougaris, V. and Hagena, T. and Jung, J. and Birmelin, J.
	and Du, L. and Metin, A. and Webster, D. A. and Plebani, A. and Moschese,
	V. and Hammarström, L. and Schäffer, A. A. and Grimbacher, B.},
  title = {Screening of functional and positional candidate genes in families
	with common variable immunodeficiency.},
  journal = {BMC Immunol},
  year = {2008},
  volume = {9},
  pages = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Salzer2012,
  author = {Salzer, U. and Warnatz, K. and Peter, H. H.},
  title = {Common variable immunodeficiency - an update},
  journal = {Arthritis Res Ther},
  year = {2012},
  volume = {14},
  pages = {223},
  number = {5}
}

@ARTICLE{Sams1979,
  author = {Sams, WM Jr and Jorizzo, JL and Snyderman, R and Jegasothy, BV and
	Ward, FE and Weiner, M and Wilson, JG and Yount, WJ and Dillard,
	SB},
  title = {Chronic mucocutaneous candidiasis. Immunologic studies of three generations
	of a single family.},
  journal = {Am J Med},
  year = {1979},
  volume = {67},
  pages = {948--959},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sanchez2013,
  author = {Sanchez, A. and Golding, I.},
  title = {Genetic determinants and cellular constraints in noisy gene expression},
  journal = {Science},
  year = {2013},
  volume = {342},
  pages = {1188--1193},
  number = {6163},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sands1997,
  author = {Sands, K. E. and Bates, D. W. and Lanken, P. N. and Graman, P. S.
	and Hibberd, P. L. and Kahn, K. L. and Parsonnet, J. and Panzer,
	R. and Orav, E. J. and Snydman, D. R. and Black, E. and Schwartz,
	J. S. and Moore, R. and Johnson, B. L. and Platt, R. and Group, Academic
	Medical Center Consortium Sepsis Project Working},
  title = {Epidemiology of sepsis syndrome in 8 academic medical centers},
  journal = {JAMA},
  year = {1997},
  volume = {278},
  pages = {234--240},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Santee1996,
  author = {Santee, SM and Owen-Schaub, LB},
  title = {Human tumor necrosis factor receptor p75/80 (CD120b) gene structure
	and promoter characterization.},
  journal = {J Biol Chem},
  year = {1996},
  volume = {271},
  pages = {21151--21159},
  number = {35},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Saxena2007,
  author = {Saxena, R. and Voight, B. F. and Lyssenko, V. and Burtt, N. P. and
	de Bakker, P. I. and Chen, H. and Roix, J. J. and Kathiresan, S.
	and Hirschhorn, J. N. and Daly, M. J. and Hughes, T. E. and Groop,
	L. and Altshuler, D. and Almgren, P. and Florez, J. C. and Meyer,
	J. and Ardlie, K. and Bengtsson Boström, K. and Isomaa, B. and Lettre,
	G. and Lindblad, U. and Lyon, H. N. and Melander, O. and Newton-Cheh,
	C. and Nilsson, P. and Orho-Melander, M. and RÃ¥stam, L. and Speliotes,
	E. K. and Taskinen, M. R. and Tuomi, T. and Guiducci, C. and Berglund,
	A. and Carlson, J. and Gianniny, L. and Hackett, R. and Hall, L.
	and Holmkvist, J. and Laurila, E. and Sjögren, M. and Sterner, M.
	and Surti, A. and Svensson, M. and Tewhey, R. and Blumenstiel, B.
	and Parkin, M. and Defelice, M. and Barry, R. and Brodeur, W. and
	Camarata, J. and Chia, N. and Fava, M. and Gibbons, J. and Handsaker,
	B. and Healy, C. and Nguyen, K. and Gates, C. and Sougnez, C. and
	Gage, D. and Nizzari, M. and Gabriel, S. B. and Chirn, G. W. and
	Ma, Q. and Parikh, H. and Richardson, D. and Ricke, D. and Purcell,
	S. and Diabetes Genetics Initiative of Broad Institute of Harvard
	and MIT, L.nd University, and Novartis Institutes of BioMedical Research},
  title = {Genome-wide association analysis identifies loci for type 2 diabetes
	and triglyceride levels.},
  journal = {Science},
  year = {2007},
  volume = {316},
  pages = {1331--1336},
  number = {5829},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Schadt2003,
  author = {Schadt, Eric E. and Monks, Stephanie A. and Drake, Thomas A. and
	Lusis, Aldons J. and Che, Nam and Colinayo, Veronica and Ruff, Thomas
	G. and Milligan, Stephen B. and Lamb, John R. and Cavet, Guy and
	Linsley, Peter S. and Mao, Mao and Stoughton, Roland B. and Friend,
	Stephen H.},
  title = {Genetics of gene expression surveyed in maize, mouse and man},
  journal = {Nature},
  year = {2003},
  volume = {422},
  pages = {297--302},
  number = {6929},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Schaub2012,
  author = {Schaub, M. A. and Boyle, A. P. and Kundaje, A. and Batzoglou, S.
	and Snyder, M.},
  title = {Linking disease associations with regulatory information in the human
	genome},
  journal = {Genome Res},
  year = {2012},
  volume = {22},
  pages = {1748-59},
  number = {9}
}

@ARTICLE{Schmid2010,
  author = {Schmid, R. and Baum, P. and Ittrich, C. and Fundel-Clemens, K. and
	Huber, W. and Brors, B. and Eils, R. and Weith, A. and Mennerich,
	D. and Quast, K.},
  title = {Comparison of normalization methods for Illumina BeadChip HumanHT-12
	v3.},
  journal = {BMC Genomics},
  year = {2010},
  volume = {11},
  pages = {349},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Schoggins2011,
  author = {Schoggins, J. W. and Wilson, S. J. and Panis, M. and Murphy, M. Y.
	and Jones, C. T. and Bieniasz, P. and Rice, C. M.},
  title = {A diverse range of gene products are effectors of the type I interferon
	antiviral response},
  journal = {Nature},
  year = {2011},
  volume = {472},
  pages = {481-5},
  number = {7344}
}

@ARTICLE{Schork2009,
  author = {Schork, N. J. and Murray, S. S. and Frazer, K. A. and Topol, E. J.},
  title = {Common vs. rare allele hypotheses for complex diseases},
  journal = {Curr Opin Genet Dev},
  year = {2009},
  volume = {19},
  pages = {212--219},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Schroder1995,
  author = {Schroder, J and Kremer, B and Stuber, F and Gallati, H and Schade,
	F},
  title = {Pattern of soluble TNF receptors I and II in sepsis},
  journal = {Infection},
  year = {1995},
  volume = {23},
  pages = {143--148},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Scott-Taylor2004,
  author = {Scott-Taylor, T. H. and Green, M. R. and Eren, E. and Webster, A.
	D.},
  title = {Monocyte derived dendritic cell responses in common variable immunodeficiency},
  journal = {Clin Exp Immunol},
  year = {2004},
  volume = {138},
  pages = {484--490},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Seals2003,
  author = {Seals, D. F. and Courtneidge, S. A.},
  title = {The ADAMs family of metalloproteases: multidomain proteins with multiple
	functions.},
  journal = {Genes Dev},
  year = {2003},
  volume = {17},
  pages = {7--30},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sekine2007,
  author = {Sekine, H. and Ferreira, R. C. and Pan-Hammarstrom, Q. and Graham,
	R. R. and Ziemba, B. and de Vries, S. S. and Liu, J. and Hippen,
	K. and Koeuth, T. and Ortmann, W. and Iwahori, A. and Elliott, M.
	K. and Offer, S. and Skon, C. and Du, L. and Novitzke, J. and Lee,
	A. T. and Zhao, N. and Tompkins, J. D. and Altshuler, D. and Gregersen,
	P. K. and Cunningham-Rundles, C. and Harris, R. S. and Her, C. and
	Nelson, D. L. and Hammarstrom, L. and Gilkeson, G. S. and Behrens,
	T. W.},
  title = {Role for Msh5 in the regulation of Ig class switch recombination},
  journal = {Proc Natl Acad Sci U S A},
  year = {2007},
  volume = {104},
  pages = {7193--7198},
  number = {17},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Severino2014,
  author = {Severino, P. and Silva, E. and Baggio-Zappia, G. L. and Brunialti,
	M. K. and Nucci, L. A. and Rigato, O., Jr. and da Silva, I. D. and
	Machado, F. R. and Salomao, R.},
  title = {Patterns of gene expression in peripheral blood mononuclear cells
	and outcomes from patients with sepsis secondary to community acquired
	pneumonia},
  journal = {PLoS One},
  year = {2014},
  volume = {9},
  pages = {e91886},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Shabalin2012,
  author = {Shabalin, A. A.},
  title = {Matrix eQTL: ultra fast eQTL analysis via large matrix operations},
  journal = {Bioinformatics},
  year = {2012},
  volume = {28},
  pages = {1353--1358},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Shankar-Hari2012,
  author = {Shankar-Hari, M. and Spencer, J. and Sewell, W. A. and Rowan, K.
	M. and Singer, M.},
  title = {Bench-to-bedside review: Immunoglobulin therapy for sepsis - biological
	plausibility from a critical care perspective},
  journal = {Crit Care},
  year = {2012},
  volume = {16},
  pages = {206},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Shanley2007,
  author = {Shanley, T. P. and Cvijanovich, N. and Lin, R. and Allen, G. L. and
	Thomas, N. J. and Doctor, A. and Kalyanaraman, M. and Tofil, N. M.
	and Penfil, S. and Monaco, M. and Odoms, K. and Barnes, M. and Sakthivel,
	B. and Aronow, B. J. and Wong, H. R.},
  title = {Genome-level longitudinal expression of signaling pathways and gene
	networks in pediatric septic shock.},
  journal = {Mol Med},
  year = {2007},
  volume = {13},
  pages = {495--508},
  number = {9-10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Shen-Orr2010,
  author = {Shen-Orr, S. S. and Tibshirani, R. and Khatri, P. and Bodian, D.
	L. and Staedtler, F. and Perry, N. M. and Hastie, T. and Sarwal,
	M. M. and Davis, M. M. and Butte, A. J.},
  title = {Cell type-specific gene expression differences in complex tissues},
  journal = {Nat Methods},
  year = {2010},
  volume = {7},
  pages = {287-9},
  number = {4}
}

@ARTICLE{Shi2011,
  author = {Shi, Y. and Li, Y. and Zhang, D. and Zhang, H. and Lu, F. and Liu,
	X. and He, F. and Gong, B. and Cai, L. and Li, R. and Liao, S. and
	Ma, S. and Lin, H. and Cheng, J. and Zheng, H. and Shan, Y. and Chen,
	B. and Hu, J. and Jin, X. and Zhao, P. and Chen, Y. and Zhang, Y.
	and Lin, Y. and Li, X. and Fan, Y. and Yang, H. and Wang, J. and
	Yang, Z.},
  title = {Exome Sequencing Identifies ZNF644 Mutations in High Myopia.},
  journal = {PLoS Genet},
  year = {2011},
  volume = {7},
  pages = {e1002084},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Shimoda2007,
  author = {Shimoda, M and Hashimoto, G and Mochizuki, S and Ikeda, E and Nagai,
	N and Ishida, S and Okada, Y},
  title = {Binding of ADAM28 to P-selectin glycoprotein ligand-1 enhances P-selectin-mediated
	leukocyte adhesion to endothelial cells.},
  journal = {J Biol Chem},
  year = {2007},
  volume = {282},
  pages = {25864--25874},
  number = {35},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Shoham2005,
  author = {Shoham, S. and Levitz, S. M.},
  title = {The immune response to fungal infections},
  journal = {Br J Haematol},
  year = {2005},
  volume = {129},
  pages = {569--582},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Silva2010,
  author = {Silva, E. and de Figueiredo, L. F. and Colombari, F.},
  title = {Prowess-shock trial: a protocol overview and perspectives.},
  journal = {Shock},
  year = {2010},
  volume = {34 Suppl 1},
  pages = {48--53},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Silvestre2009,
  author = {Silvestre, J. and Povoa, P. and Coelho, L. and Almeida, E. and Moreira,
	P. and Fernandes, A. and Mealha, R. and Sabino, H.},
  title = {Is C-reactive protein a good prognostic marker in septic patients?},
  journal = {Intensive Care Med},
  year = {2009},
  volume = {35},
  pages = {909-913},
  number = {5}
}

@ARTICLE{Simonsen2007,
  author = {Simonsen, L. and Taylor, R. J. and Viboud, C. and Miller, M. A. and
	Jackson, L. A.},
  title = {Mortality benefits of influenza vaccination in elderly people: an
	ongoing controversy},
  journal = {Lancet Infect Dis},
  year = {2007},
  volume = {7},
  pages = {658--666},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sing2005,
  author = {Sing, T. and Sander, O. and Beerenwinkel, N. and Lengauer, T.},
  title = {ROCR: visualizing classifier performance in R},
  journal = {Bioinformatics},
  year = {2005},
  volume = {21},
  pages = {3940--3941},
  number = {20},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Singanayagam2011,
  author = {Singanayagam, A. and Wood, V. and Chalmers, J. D.},
  title = {Factors associated with severe illness in pandemic 2009 influenza
	a (H1N1) infection: Implications for triage in primary and secondary
	care.},
  journal = {J Infect},
  year = {2011},
  volume = {63},
  pages = {243--251},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Slatkin2008,
  author = {Slatkin, M.},
  title = {Linkage disequilibrium--understanding the evolutionary past and mapping
	the medical future},
  journal = {Nat Rev Genet},
  year = {2008},
  volume = {9},
  pages = {477--485},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Smeeth2012,
  author = {Smeeth, L. and Staa, Tv},
  title = {Will the revolution in genetics improve healthcare?},
  journal = {BMJ},
  year = {2012},
  volume = {345},
  pages = {e4651},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@INBOOK{Smyth2005,
  pages = {397--420},
  title = {Limma: linear models for microarray data},
  publisher = {Springer},
  year = {2005},
  editor = {Gentleman, Robert and Carey, Vince and Dudoit, Sandrine and Irizarry,
	Rafael and Huber, Wolfgang},
  author = {Smyth, Gordon K.},
  type = {Book Section},
  address = {New York},
  note = {2005923843 GBA558678 editors, Robert Gentleman ... [et al.]. ill.
	(some col.) ; 24 cm. Includes bibliographical references (p. [445]-463)
	and index.},
  booktitle = {Bioinformatics and computational biology solutions using R and Bioconductor},
  isbn = {0387251464 (alk. paper) 9780387251462 (alk. paper)},
  keywords = {Bioinformatics. Bioconductor (Computer file) R (Computer program language)},
  owner = {edavenp},
  timestamp = {2014.09.23},
  url = {Publisher description http://www.loc.gov/catdir/enhancements/fy0662/2005923843-d.html Table of contents only http://www.loc.gov/catdir/enhancements/fy0818/2005923843-t.html}
}

@ARTICLE{Smyth2004,
  author = {Smyth, G. K.},
  title = {Linear models and empirical bayes methods for assessing differential
	expression in microarray experiments},
  journal = {Stat Appl Genet Mol Biol},
  year = {2004},
  volume = {3},
  pages = {Article3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Southam2011,
  author = {Southam, L. and Panoutsopoulou, K. and Rayner, N. W. and Chapman,
	K. and Durrant, C. and Ferreira, T. and Arden, N. and Carr, A. and
	Deloukas, P. and Doherty, M. and Loughlin, J. and McCaskie, A. and
	Ollier, W. E. and Ralston, S. and Spector, T. D. and Valdes, A. M.
	and Wallis, G. A. and Wilkinson, J. M. and arc, Ogen consortium and
	Marchini, J. and Zeggini, E.},
  title = {The effect of genome-wide association scan quality control on imputation
	outcome for common variants},
  journal = {Eur J Hum Genet},
  year = {2011},
  volume = {19},
  pages = {610--614},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sriskandan1999,
  author = {Sriskandan, S. and Cohen, J.},
  title = {Gram-positive sepsis. Mechanisms and differences from gram-negative
	sepsis},
  journal = {Infect Dis Clin North Am},
  year = {1999},
  volume = {13},
  pages = {397--412},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Stepensky2013,
  author = {Stepensky, P. and Keller, B. and Buchta, M. and Kienzler, A. K. and
	Elpeleg, O. and Somech, R. and Cohen, S. and Shachar, I. and Miosge,
	L. A. and Schlesier, M. and Fuchs, I. and Enders, A. and Eibel, H.
	and Grimbacher, B. and Warnatz, K.},
  title = {Deficiency of caspase recruitment domain family, member 11 (CARD11),
	causes profound combined immunodeficiency in human subjects},
  journal = {J Allergy Clin Immunol},
  year = {2013},
  volume = {131},
  pages = {477--485},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Stewart2007,
  author = {Stewart, G. S. and Stankovic, T. and Byrd, P. J. and Wechsler, T.
	and Miller, E. S. and Huissoon, A. and Drayson, M. T. and West, S.
	C. and Elledge, S. J. and Taylor, A. M.},
  title = {RIDDLE immunodeficiency syndrome is linked to defects in 53BP1-mediated
	DNA damage signaling},
  journal = {Proc Natl Acad Sci U S A},
  year = {2007},
  volume = {104},
  pages = {16910--16915},
  number = {43},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Stranger2005,
  author = {Stranger, B. E. and Dermitzakis, E. T.},
  title = {The genetics of regulatory variation in the human genome},
  journal = {Hum Genomics},
  year = {2005},
  volume = {2},
  pages = {126--131},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Stranger2012,
  author = {Stranger, B. E. and Montgomery, S. B. and Dimas, A. S. and Parts,
	L. and Stegle, O. and Ingle, C. E. and Sekowska, M. and Smith, G.
	D. and Evans, D. and Gutierrez-Arcelus, M. and Price, A. and Raj,
	T. and Nisbett, J. and Nica, A. C. and Beazley, C. and Durbin, R.
	and Deloukas, P. and Dermitzakis, E. T.},
  title = {Patterns of cis regulatory variation in diverse human populations},
  journal = {PLoS Genet},
  year = {2012},
  volume = {8},
  pages = {e1002639},
  number = {4}
}

@ARTICLE{Stranger2007,
  author = {Stranger, B. E. and Nica, A. C. and Forrest, M. S. and Dimas, A.
	and Bird, C. P. and Beazley, C. and Ingle, C. E. and Dunning, M.
	and Flicek, P. and Koller, D. and Montgomery, S. and Tavare, S. and
	Deloukas, P. and Dermitzakis, E. T.},
  title = {Population genomics of human gene expression},
  journal = {Nat Genet},
  year = {2007},
  volume = {39},
  pages = {1217--1224},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Stucki2005,
  author = {Stucki, M. and Clapperton, J. A. and Mohammad, D. and Yaffe, M. B.
	and Smerdon, S. J. and Jackson, S. P.},
  title = {MDC1 directly binds phosphorylated histone H2AX to regulate cellular
	responses to DNA double-strand breaks},
  journal = {Cell},
  year = {2005},
  volume = {123},
  pages = {1213--1226},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Stucki2004,
  author = {Stucki, M. and Jackson, S. P.},
  title = {MDC1/NFBD1: a key regulator of the DNA damage response in higher
	eukaryotes.},
  journal = {DNA Repair (Amst)},
  year = {2004},
  volume = {3},
  pages = {953--957},
  number = {8-9},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Suh2005,
  author = {Suh, Yousin and Vijga, Jan},
  title = {SNP discovery in associating genetic variation with human disease
	phenotypes},
  journal = {Mut Res},
  year = {2005},
  volume = {573},
  pages = {41--53},
  number = {1-2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Sutherland2009,
  author = {Sutherland, AM and Walley, KR},
  title = {Bench-to-bedside review: Association of genetic variation with sepsis.},
  journal = {Crit Care},
  year = {2009},
  volume = {13},
  pages = {210},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@MANUAL{Tai2007,
  title = {timecourse: Statistical Analysis for Developmental Microarray Time
	Course Data},
  author = {Tai, Y. C.},
  year = {2007},
  note = {R package version 1.28.0},
  owner = {edavenp},
  timestamp = {2014.09.23},
  url = {http://www.bioconductor.org}
}

@ARTICLE{Takeuchi2001,
  author = {Takeuchi, O. and Akira, S.},
  title = {Toll-like receptors; their physiological role and signal transduction
	system},
  journal = {Int Immunopharmacol},
  year = {2001},
  volume = {1},
  pages = {625--635},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Tang2010,
  author = {Tang, B. M. and Huang, S. J. and McLean, A. S.},
  title = {Genome-wide transcription profiling of human sepsis: a systematic
	review},
  journal = {Crit Care},
  year = {2010},
  volume = {14},
  pages = {R237},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Tang2008,
  author = {Tang, B. M. and McLean, A. S. and Dawes, I. W. and Huang, S. J. and
	Cowley, M. J. and Lin, R. C.},
  title = {Gene-expression profiling of gram-positive and gram-negative sepsis
	in critically ill patients},
  journal = {Crit Care Med},
  year = {2008},
  volume = {36},
  pages = {1125--1128},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Tang2009,
  author = {Tang, B. M. and McLean, A. S. and Dawes, I. W. and Huang, S. J. and
	Lin, R. C.},
  title = {Gene-expression profiling of peripheral blood mononuclear cells in
	sepsis},
  journal = {Crit Care Med},
  year = {2009},
  volume = {37},
  pages = {882--888},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Tang2007,
  author = {Tang, B. M. and McLean, A. S. and Dawes, I. W. and Huang, S. J. and
	Lin, R. C.},
  title = {The use of gene-expression profiling to identify candidate genes
	in human sepsis},
  journal = {Am J Respir Crit Care Med},
  year = {2007},
  volume = {176},
  pages = {676--684},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Tanner2002,
  author = {Tanner, M. A. and Berk, L. S. and Felten, D. L. and Blidy, A. D.
	and Bit, S. L. and Ruff, D. W.},
  title = {Substantial changes in gene expression level due to the storage temperature
	and storage duration of human whole blood},
  journal = {Clin Lab Haematol},
  year = {2002},
  volume = {24},
  pages = {337-341},
  number = {6}
}

@ARTICLE{Tartaglia1993,
  author = {Tartaglia, LA and Pennica, D and Goeddel, DV},
  title = {Ligand passing: the 75-kDa tumor necrosis factor (TNF) receptor recruits
	TNF for signaling by the 55-kDa TNF receptor.},
  journal = {J Biol Chem},
  year = {1993},
  volume = {268},
  pages = {18542--18548},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Tate1993,
  author = {Tate, P. H. and Bird, A. P.},
  title = {Effects of DNA methylation on DNA-binding proteins and gene expression},
  journal = {Curr Opin Genet Dev},
  year = {1993},
  volume = {3},
  pages = {226--231},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Taylor2007,
  author = {Taylor, J. M. and Song, Y. J. and Huang, Y. and Farrer, M. J. and
	Delatycki, M. B. and Halliday, G. M. and Lockhart, P. J.},
  title = {Parkin Co-Regulated Gene (PACRG) is regulated by the ubiquitin-proteasomal
	system and is present in the pathological features of Parkinsonian
	diseases.},
  journal = {Neurobiol Dis},
  year = {2007},
  volume = {27},
  pages = {238--247},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Thiel2012,
  author = {Thiel, J. and Kimmig, L. and Salzer, U. and Grudzien, M. and Lebrecht,
	D. and Hagena, T. and Draeger, R. and Voelxen, N. and Bergbreiter,
	A. and Jennings, S. and Gutenberger, S. and Aichem, A. and Illges,
	H. and Hannan, J. P. and Kienzler, A. K. and Rizzi, M. and Eibel,
	H. and Peter, H. H. and Warnatz, K. and Grimbacher, B. and Rump,
	J. A. and Schlesier, M.},
  title = {Genetic CD21 deficiency is associated with hypogammaglobulinemia},
  journal = {J Allergy Clin Immunol},
  year = {2012},
  volume = {129},
  pages = {801--810},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Thomas2009,
  author = {Thomas, D. L. and Thio, C. L. and Martin, M. P. and Qi, Y. and Ge,
	D. and O'Huigin, C. and Kidd, J. and Kidd, K. and Khakoo, S. I. and
	Alexander, G. and Goedert, J. J. and Kirk, G. D. and Donfield, S.
	M. and Rosen, H. R. and Tobler, L. H. and Busch, M. P. and McHutchison,
	J. G. and Goldstein, D. B. and Carrington, M.},
  title = {Genetic variation in IL28B and spontaneous clearance of hepatitis
	C virus},
  journal = {Nature},
  year = {2009},
  volume = {461},
  pages = {798--801},
  number = {7265},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Thommesen2005,
  author = {Thommesen, L and Laegreid, A},
  title = {Distinct differences between TNF receptor 1- and TNF receptor 2-mediated
	activation of NFkappaB.},
  journal = {J Biochem Mol Biol},
  year = {2005},
  volume = {38},
  pages = {281--289},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Todd2006,
  author = {Todd, J. A.},
  title = {Statistical false positive or true disease pathway?},
  journal = {Nat Genet},
  year = {2006},
  volume = {38},
  pages = {731--733},
  number = {7}
}

@ARTICLE{Tolussoa2004,
  author = {Tolussoa, B. and Saccob, S. and Gremesea, E. and Torrec, G. La and
	Tomiettoa, P. and Ferracciolia, G.F.},
  title = {Relationship between the tumor necrosis factor receptor II (TNF-RII)
	gene polymorphism and sTNF-RII plasma levels in healthy controls
	and in rheumatoid arthritis},
  journal = {Human Immunology},
  year = {2004},
  volume = {65},
  pages = {1420--1426},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Torrance2014,
  author = {Torrance, H. D. and Brohi, K. and Pearse, R. M. and Mein, C. A. and
	Wozniak, E. and Prowle, J. R. and Hinds, C. J. and O'Dwyer M, J.},
  title = {Association Between Gene Expression Biomarkers of Immunosuppression
	and Blood Transfusion in Severely Injured Polytrauma Patients},
  journal = {Ann Surg},
  year = {2014},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Tosi2005,
  author = {Tosi, M. F.},
  title = {Innate immune responses to infection},
  journal = {J Allergy Clin Immunol},
  year = {2005},
  volume = {116},
  pages = {241--249; quiz 250},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Trowsdale2013,
  author = {Trowsdale, J. and Knight, J. C.},
  title = {Major histocompatibility complex genomics and human disease},
  journal = {Annu Rev Genomics Hum Genet},
  year = {2013},
  volume = {14},
  pages = {301--323},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Trynka2013,
  author = {Trynka, G. and Sandor, C. and Han, B. and Xu, H. and Stranger, B.
	E. and Liu, X. S. and Raychaudhuri, S.},
  title = {Chromatin marks identify critical cell types for fine mapping complex
	trait variants},
  journal = {Nat Genet},
  year = {2013},
  volume = {45},
  pages = {124--130},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Ulevitch1995,
  author = {Ulevitch, R. J. and Tobias, P. S.},
  title = {Receptor-dependent mechanisms of cell stimulation by bacterial endotoxin},
  journal = {Annu Rev Immunol},
  year = {1995},
  volume = {13},
  pages = {437--457},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Veer2002,
  author = {{van 't Veer}, L. J. and Dai, H. and van de Vijver, M. J. and He,
	Y. D. and Hart, A. A. and Mao, M. and Peterse, H. L. and van der
	Kooy, K. and Marton, M. J. and Witteveen, A. T. and Schreiber, G.
	J. and Kerkhoven, R. M. and Roberts, C. and Linsley, P. S. and Bernards,
	R. and Friend, S. H.},
  title = {Gene expression profiling predicts clinical outcome of breast cancer},
  journal = {Nature},
  year = {2002},
  volume = {415},
  pages = {530-536},
  number = {6871}
}

@ARTICLE{Vandenbulcke2006,
  author = {Vandenbulcke, L. and Bachert, C. and Van Cauwenberge, P. and Claeys,
	S.},
  title = {The innate immune system and its role in allergic disorders},
  journal = {Int Arch Allergy Immunol},
  year = {2006},
  volume = {139},
  pages = {159--165},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{VanEpps2006,
  author = {Van Epps, HL},
  title = {Ignoring endotoxin.},
  journal = {J Exp Med},
  year = {2006},
  volume = {203},
  pages = {1137},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Zelm2006,
  author = {{van Zelm}, M. C. and Reisli, I. and van der Burg, M. and Castaño,
	D. and van Noesel, C. J. and van Tol, M. J. and Woellner, C. and
	Grimbacher, B. and Patiño, P. J. and van Dongen, J. J. and Franco,
	J. L.},
  title = {An antibody-deficiency syndrome due to mutations in the CD19 gene},
  journal = {N Engl J Med},
  year = {2006},
  volume = {354},
  pages = {1901--1912},
  number = {18},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Veerdonk2011,
  author = {van de Veerdonk, F. L. and Plantinga, T. S. and Hoischen, A. and
	Smeekens, S. P. and Joosten, L. A. and Gilissen, C. and Arts, P.
	and Rosentul, D. C. and Carmichael, A. J. and Smits-van der Graaf,
	C. A. and Kullberg, B. J. and van der Meer, J. W. and Lilic, D. and
	Veltman, J. A. and Netea, M. G.},
  title = {STAT1 mutations in autosomal dominant chronic mucocutaneous candidiasis.},
  journal = {N Engl J Med},
  year = {2011},
  volume = {365},
  pages = {54--61},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Veltman2012,
  author = {Veltman, J. A. and Brunner, H. G.},
  title = {De novo mutations in human genetic disease},
  journal = {Nat Rev Genet},
  year = {2012},
  volume = {13},
  pages = {565--575},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Vestal2005,
  author = {Vestal, D. J.},
  title = {The guanylate-binding proteins (GBPs): proinflammatory cytokine-induced
	members of the dynamin superfamily with unique GTPase activity},
  journal = {J Interferon Cytokine Res},
  year = {2005},
  volume = {25},
  pages = {435-443},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Veyrieras2012,
  author = {Veyrieras, J. B. and Gaffney, D. J. and Pickrell, J. K. and Gilad,
	Y. and Stephens, M. and Pritchard, J. K.},
  title = {Exon-specific QTLs skew the inferred distribution of expression QTLs
	detected using gene expression array data},
  journal = {PLoS One},
  year = {2012},
  volume = {7},
  pages = {e30629},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Veyrieras2008,
  author = {Veyrieras, J. B. and Kudaravalli, S. and Kim, S. Y. and Dermitzakis,
	E. T. and Gilad, Y. and Stephens, M. and Pritchard, J. K.},
  title = {High-resolution mapping of expression-QTLs yields insight into human
	gene regulation},
  journal = {PLoS Genet},
  year = {2008},
  volume = {4},
  pages = {e1000214},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Via2010,
  author = {Via, M. and Gignoux, C. and Burchard, E. G.},
  title = {The 1000 Genomes Project: new opportunities for research and social
	challenges},
  journal = {Genome Med},
  year = {2010},
  volume = {2},
  pages = {3},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Vilcek1991,
  author = {Vilcek, J. and Lee, T. H.},
  title = {Tumor necrosis factor. New insights into the molecular mechanisms
	of its multiple actions},
  journal = {J Biol Chem},
  year = {1991},
  volume = {266},
  pages = {7313--7316},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Vincent2004,
  author = {Vincent, J. L.},
  title = {Endpoints in sepsis trials: more than just 28-day mortality?},
  journal = {Crit Care Med},
  year = {2004},
  volume = {32},
  pages = {S209-213},
  number = {5 Suppl}
}

@ARTICLE{Vincent2010,
  author = {Vincent, J-L. and Moreno, R.},
  title = {Clinical review: Scoring systems in the critically ill},
  journal = {Crit Care},
  year = {2010},
  volume = {14},
  pages = {207},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Visscher2012,
  author = {Visscher, P. M. and Brown, M. A. and McCarthy, M. I. and Yang, J.},
  title = {Five Years of GWAS Discovery.},
  journal = {Am J Hum Genet},
  year = {2012},
  volume = {90},
  pages = {7--24},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Vissers2010,
  author = {Vissers, L. E. and de Ligt, J. and Gilissen, C. and Janssen, I. and
	Steehouwer, M. and de Vries, P. and van Lier, B. and Arts, P. and
	Wieskamp, N. and del Rosario, M. and van Bon, B. W. and Hoischen,
	A. and de Vries, B. B. and Brunner, H. G. and Veltman, J. A.},
  title = {A de novo paradigm for mental retardation.},
  journal = {Nat Genet},
  year = {2010},
  volume = {42},
  pages = {1109--1112},
  number = {12},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Volanakis1992,
  author = {Volanakis, J. E. and Zhu, Z. B. and Schaffer, F. M. and Macon, K.
	J. and Palermos, J. and Barger, B. O. and Go, R. and Campbell, R.
	D. and Schroeder, H. W., Jr. and Cooper, M. D.},
  title = {Major histocompatibility complex class III genes and susceptibility
	to immunoglobulin A deficiency and common variable immunodeficiency},
  journal = {J Clin Invest},
  year = {1992},
  volume = {89},
  pages = {1914--1922},
  number = {6},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Vorechovsky1999,
  author = {Vorechovsky, I. and Webster, A. D. and Plebani, A. and Hammarstrom,
	L.},
  title = {Genetic linkage of IgA deficiency to the major histocompatibility
	complex: evidence for allele segregation distortion, parent-of-origin
	penetrance differences, and the role of anti-IgA antibodies in disease
	predisposition},
  journal = {Am J Hum Genet},
  year = {1999},
  volume = {64},
  pages = {1096-109},
  number = {4}
}

@ARTICLE{Walker2012,
  author = {Walker, L. J. and Kang, Y. H. and Smith, M. O. and Tharmalingham,
	H. and Ramamurthy, N. and Fleming, V. M. and Sahgal, N. and Leslie,
	A. and Oo, Y. and Geremia, A. and Scriba, T. J. and Hanekom, W. A.
	and Lauer, G. M. and Lantz, O. and Adams, D. H. and Powrie, F. and
	Barnes, E. and Klenerman, P.},
  title = {Human MAIT and CD8alphaalpha cells develop from a pool of type-17
	precommitted CD8+ T cells},
  journal = {Blood},
  year = {2012},
  volume = {119},
  pages = {422--433},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wang2012,
  author = {Wang, J. and Nikrad, M. P. and Travanty, E. A. and Zhou, B. and Phang,
	T. and Gao, B. and Alford, T. and Ito, Y. and Nahreini, P. and Hartshorn,
	K. and Wentworth, D. and Dinarello, C. A. and Mason, R. J.},
  title = {Innate immune response of human alveolar macrophages during influenza
	A infection},
  journal = {PLoS One},
  year = {2012},
  volume = {7},
  pages = {e29879},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wang2011,
  author = {Wang, L. and Jia, P. and Wolfinger, R. D. and Chen, X. and Zhao,
	Z.},
  title = {Gene set analysis of genome-wide association studies: methodological
	issues and perspectives},
  journal = {Genomics},
  year = {2011},
  volume = {98},
  pages = {1--8},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Wang2009,
  author = {Wang, Z. and Gerstein, M. and Snyder, M.},
  title = {RNA-Seq: a revolutionary tool for transcriptomics},
  journal = {Nat Rev Genet},
  year = {2009},
  volume = {10},
  pages = {57--63},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wang2010,
 author = {Wang, K. and Li, M. and Hakonarson, H.},
  title = {Analysing biological pathways in genome-wide association studies},
  journal = {Nat Rev Genet},
  year = {2010},
  volume = {11},
  pages = {843--854},
}

@ARTICLE{Ward2010,
  author = {Ward, P. A.},
  title = {The harmful role of c5a on innate immunity in sepsis},
  journal = {J Innate Immun},
  year = {2010},
  volume = {2},
  pages = {439--445},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Warnatz2006,
  author = {Warnatz, K. and Bossaller, L. and Salzer, U. and Skrabl-Baumgartner,
	A. and Schwinger, W. and van der Burg, M. and van Dongen, J. J. and
	Orlowska-Volk, M. and Knoth, R. and Durandy, A. and Draeger, R. and
	Schlesier, M. and Peter, H. H. and Grimbacher, B.},
  title = {Human ICOS deficiency abrogates the germinal center reaction and
	provides a monogenic model for common variable immunodeficiency},
  journal = {Blood},
  year = {2006},
  volume = {107},
  pages = {3045--3052},
  number = {8},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Warnatz2009,
  author = {Warnatz, K. and Salzer, U. and Rizzi, M. and Fischer, B. and Gutenberger,
	S. and Bohm, J. and Kienzler, A. K. and Pan-Hammarstrom, Q. and
	Hammarstrom, L. and Rakhmanov, M. and Schlesier, M. and Grimbacher,
	B. and Peter, H. H. and Eibel, H.},
  title = {B-cell activating factor receptor deficiency is associated with an
	adult-onset antibody deficiency syndrome in humans},
  journal = {Proc Natl Acad Sci U S A},
  year = {2009},
  volume = {106},
  pages = {13945--13950},
  number = {33},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Weiss2013,
  author = {Weiss, M. and Blazek, K. and Byrne, A. J. and Perocheau, D. P. and
	Udalova, I. A.},
  title = {IRF5 is a specific marker of inflammatory macrophages in vivo},
  journal = {Mediators Inflamm},
  year = {2013},
  volume = {2013},
  pages = {245804}
}

@ARTICLE{WTCCC2007,
  author = {{Wellcome Trust Case Control Consortium}},
  title = {Genome-wide association study of 14,000 cases of seven common diseases
	and 3,000 shared controls},
  journal = {Nature},
  year = {2007},
  volume = {447},
  pages = {661--678},
  number = {7145},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{West2008,
  author = {West, MA and Koons, A},
  title = {Endotoxin tolerance in sepsis: concentration-dependent augmentation
	or inhibition of LPS-stimulated macrophage TNF secretion by LPS pretreatment.},
  journal = {J Trauma},
  year = {2008},
  volume = {65},
  pages = {893--898; discussion898--900},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Westra2014a,
  author = {Westra, H-J and Arends, D. and Esko, T. and Peters, M. J. and Schurmann,
	C. and Schramm, K. and Kettunen, J. and Yaghootkar, H. and Fairfax,
	B. and Andiappan, A. K. and Li, Y. and Fu, J. and Karjalainen, J.
	and Platteel, M. and Visschedijk, M. and Weersma, R. and Kasela,
	S. and Milani, L. and Tserel, L. and Peterson, P. and Reinmaa, E.
	and Hofman, A. and U., Andr{\'e} G. and Rivadeneira, F. and Homuth,
	G. and Petersmann, A. and Lorbeer, R. and Prokisch, H. and Meitinger,
	T. and Herder, C. and Roden, M. and Grallert, H. and Ripatti, S.
	and Perola, M. and Wood, A. R. and Melzer, D. and Ferrucci, L. and
	Singleton, A. B. and Hernandez, D. G. and Knight, J. C. and Melchiotti,
	R. and Lee, B. and Poidinger, M. and Zolezzi, F. and Larbi, A. and
	Wang, D. Y. and van den Berg, L. H. and Veldink, J. H. and Rotzschke,
	O. and Makino, S. and Frayling, T. and Salomaa, V. and Strauch, K.
	and V{\"o}lker, U. and van Meurs, J. B.J. and Metspalu, A. and Wijmenga,
	C. and Jansen, R. C. and Franke, L.},
  title = {Cell specific eQTL analysis without sorting cells},
  journal = {bioRxiv},
  year = {2014},
  doi = {10.1101/002600},
  publisher = {Cold Spring Harbor Labs Journals}
}

@ARTICLE{Westra2014,
  author = {Westra, H. J. and Franke, L.},
  title = {From genome to function by studying eQTLs},
  journal = {Biochim Biophys Acta},
  year = {2014}
}

@ARTICLE{Westra2013,
  author = {Westra, H. J. and Peters, M. J. and Esko, T. and Yaghootkar, H. and
	Schurmann, C. and Kettunen, J. and Christiansen, M. W. and Fairfax,
	B. P. and Schramm, K. and Powell, J. E. and Zhernakova, A. and Zhernakova,
	D. V. and Veldink, J. H. and Van den Berg, L. H. and Karjalainen,
	J. and Withoff, S. and Uitterlinden, A. G. and Hofman, A. and Rivadeneira,
	F. and t Hoen, P. A. and Reinmaa, E. and Fischer, K. and Nelis, M.
	and Milani, L. and Melzer, D. and Ferrucci, L. and Singleton, A.
	B. and Hernandez, D. G. and Nalls, M. A. and Homuth, G. and Nauck,
	M. and Radke, D. and Volker, U. and Perola, M. and Salomaa, V. and
	Brody, J. and Suchy-Dicey, A. and Gharib, S. A. and Enquobahrie,
	D. A. and Lumley, T. and Montgomery, G. W. and Makino, S. and Prokisch,
	H. and Herder, C. and Roden, M. and Grallert, H. and Meitinger, T.
	and Strauch, K. and Li, Y. and Jansen, R. C. and Visscher, P. M.
	and Knight, J. C. and Psaty, B. M. and Ripatti, S. and Teumer, A.
	and Frayling, T. M. and Metspalu, A. and van Meurs, J. B. and Franke,
	L.},
  title = {Systematic identification of trans eQTLs as putative drivers of known
	disease associations},
  journal = {Nat Genet},
  year = {2013},
  volume = {45},
  pages = {1238--1243},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wiersinga2011,
  author = {Wiersinga, W. J.},
  title = {Current insights in sepsis: from pathogenesis to new treatment targets},
  journal = {Curr Opin Crit Care},
  year = {2011},
  volume = {17},
  pages = {480--486},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wilkerson2014,
  author = {Wilkerson, M. D. and Cabanski, C. R. and Sun, W. and Hoadley, K.
	A. and Walter, V. and Mose, L. E. and Troester, M. A. and Hammerman,
	P. S. and Parker, J. S. and Perou, C. M. and Hayes, D. N.},
  title = {Integrated RNA and {DNA} sequencing improves mutation detection in
	low purity tumors},
  journal = {Nucleic Acids Res},
  year = {2014},
  volume = {42},
  pages = {e107},
  number = {13},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Williams2010,
  author = {Williams, A. and Spilianakis, C. G. and Flavell, R. A.},
  title = {Interchromosomal association and gene regulation in trans},
  journal = {Trends Genet},
  year = {2010},
  volume = {26},
  pages = {188--197},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Winney2012,
  author = {Winney, B. and Boumertit, A. and Day, T. and Davison, D. and Echeta,
	C. and Evseeva, I. and Hutnik, K. and Leslie, S. and Nicodemus, K.
	and Royrvik, E. C. and Tonks, S. and Yang, X. and Cheshire, J. and
	Longley, P. and Mateos, P. and Groom, A. and Relton, C. and Bishop,
	D. T. and Black, K. and Northwood, E. and Parkinson, L. and Frayling,
	T. M. and Steele, A. and Sampson, J. R. and King, T. and Dixon, R.
	and Middleton, D. and Jennings, B. and Bowden, R. and Donnelly, P.
	and Bodmer, W.},
  title = {People of the British Isles: preliminary analysis of genotypes and
	surnames in a UK-control population},
  journal = {Eur J Hum Genet},
  year = {2012},
  volume = {20},
  pages = {203--210},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2012,
  author = {Wong, H. R.},
  title = {Clinical review: sepsis and septic shock--the potential of gene arrays},
  journal = {Crit Care},
  year = {2012},
  volume = {16},
  pages = {204},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2012a,
  author = {Wong, H. R.},
  title = {Genetics and genomics in pediatric septic shock},
  journal = {Crit Care Med},
  year = {2012},
  volume = {40},
  pages = {1618--1626},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2009,
  author = {Wong, H. R. and Cvijanovich, N. and Allen, G. L. and Lin, R. and
	Anas, N. and Meyer, K. and Freishtat, R. J. and Monaco, M. and Odoms,
	K. and Sakthivel, B. and Shanley, T. P. and Investigators, Genomics
	of Pediatric SIRS/Septic Shock},
  title = {Genomic expression profiling across the pediatric systemic inflammatory
	response syndrome, sepsis, and septic shock spectrum.},
  journal = {Crit Care Med},
  year = {2009},
  volume = {37},
  pages = {1558--1566},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2009a,
  author = {Wong, H. R. and Cvijanovich, N. and Lin, R. and Allen, G. L. and
	Thomas, N. J. and Willson, D. F. and Freishtat, R. J. and Anas, N.
	and Meyer, K. and Checchia, P. A. and Monaco, M. and Odom, K. and
	Shanley, T. P.},
  title = {Identification of pediatric septic shock subclasses based on genome-wide
	expression profiling},
  journal = {BMC Med},
  year = {2009},
  volume = {7},
  pages = {34},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2011,
  author = {Wong, H. R. and Cvijanovich, N. Z. and Allen, G. L. and Thomas, N.
	J. and Freishtat, R. J. and Anas, N. and Meyer, K. and Checchia,
	P. A. and Lin, R. and Shanley, T. P. and Bigham, M. T. and Wheeler,
	D. S. and Doughty, L. A. and Tegtmeyer, K. and Poynter, S. E. and
	Kaplan, J. M. and Chima, R. S. and Stalets, E. and Basu, R. K. and
	Varisco, B. M. and Barr, F. E.},
  title = {Validation of a gene expression-based subclassification strategy
	for pediatric septic shock},
  journal = {Crit Care Med},
  year = {2011},
  volume = {39},
  pages = {2511--2517},
  number = {11},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2010,
  author = {Wong, H. R. and Freishtat, R. J. and Monaco, M. and Odoms, K. and
	Shanley, T. P.},
  title = {Leukocyte subset-derived genomewide expression profiles in pediatric
	septic shock.},
  journal = {Pediatr Crit Care Med},
  year = {2010},
  volume = {11},
  pages = {349--355},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2014,
  author = {Wong, H. R. and Lindsell, C. J. and Pettila, V. and Meyer, N. J.
	and Thair, S. A. and Karlsson, S. and Russell, J. A. and Fjell, C.
	D. and Boyd, J. H. and Ruokonen, E. and Shashaty, M. G. and Christie,
	J. D. and Hart, K. W. and Lahni, P. and Walley, K. R.},
  title = {A multibiomarker-based outcome risk stratification model for adult
	septic shock*},
  journal = {Crit Care Med},
  year = {2014},
  volume = {42},
  pages = {781--789},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2007,
  author = {Wong, H. R. and Shanley, T. P. and Sakthivel, B. and Cvijanovich,
	N. and Lin, R. and Allen, G. L. and Thomas, N. J. and Doctor, A.
	and Kalyanaraman, M. and Tofil, N. M. and Penfil, S. and Monaco,
	M. and Tagavilla, M. A. and Odoms, K. and Dunsmore, K. and Barnes,
	M. and Aronow, B. J. and Genomics of Pediatric, Sirs Septic Shock
	Investigators},
  title = {Genome-level expression profiles in pediatric septic shock indicate
	a role for altered zinc homeostasis in poor outcome},
  journal = {Physiol Genomics},
  year = {2007},
  volume = {30},
  pages = {146--155},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wong2010a,
  author = {Wong, H. R. and Wheeler, D. S. and Tegtmeyer, K. and Poynter, S.
	E. and Kaplan, J. M. and Chima, R. S. and Stalets, E. and Basu, R.
	K. and Doughty, L. A.},
  title = {Toward a clinically feasible gene expression-based subclassification
	strategy for septic shock: proof of concept},
  journal = {Crit Care Med},
  year = {2010},
  volume = {38},
  pages = {1955--1961},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Woods2013,
  author = {Woods, C. W. and McClain, M. T. and Chen, M. and Zaas, A. K. and
	Nicholson, B. P. and Varkey, J. and Veldman, T. and Kingsmore, S.
	F. and Huang, Y. and Lambkin-Williams, R. and Gilbert, A. G. and
	Hero, A. O., 3rd and Ramsburg, E. and Glickman, S. and Lucas, J.
	E. and Carin, L. and Ginsburg, G. S.},
  title = {A host transcriptional signature for presymptomatic detection of
	infection in humans exposed to influenza H1N1 or H3N2},
  journal = {PLoS One},
  year = {2013},
  volume = {8},
  pages = {e52198},
  number = {1}
}

@ARTICLE{Woods2012,
  author = {Woods, N. T. and Mesquita, R. D. and Sweet, M. and Carvalho, M. A.
	and Li, X. and Liu, Y. and Nguyen, H. and Thomas, C. E. and Iversen,
	E. S., Jr. and Marsillac, S. and Karchin, R. and Koomen, J. and Monteiro,
	A. N.},
  title = {Charting the landscape of tandem BRCT domain-mediated protein interactions},
  journal = {Sci Signal},
  year = {2012},
  volume = {5},
  pages = {rs6},
  number = {242}
}

@OTHER{WHO2014,
  author = {{World Health Organization}},
  title = {Antimicrobial resistance},
  url = {http://www.who.int/mediacentre/factsheets/fs194/en/},
  urldate = {2014-10-01},
  year = {2014}
}

@OTHER{WHOInfectiousDisease,
  author = {{World Health Organization}},
  title = {The top 10 causes of death},
  url = {http://www.who.int/mediacentre/factsheets/fs310/en/index2.html},
  urldate = {2014-10-04},
  year = {2014}
}

@OTHER{WHO2013,
  author = {{World Health Organization}},
  owner = {edavenp},
  timestamp = {2014.09.23},
  title = {Influenza},
  url = {http://www.euro.who.int/en/what-we-do/health-topics/communicable-diseases/influenza/facts-and-figures },
  urldate = {2013-11-06},
  year = {2013}
}

@ARTICLE{Wright2014,
  author = {Wright, F. A. and Sullivan, P. F. and Brooks, A. I. and Zou, F. and
	Sun, W. and Xia, K. and Madar, V. and Jansen, R. and Chung, W. and
	Zhou, Y. H. and Abdellaoui, A. and Batista, S. and Butler, C. and
	Chen, G. and Chen, T. H. and D'Ambrosio, D. and Gallins, P. and Ha,
	M. J. and Hottenga, J. J. and Huang, S. and Kattenberg, M. and Kochar,
	J. and Middeldorp, C. M. and Qu, A. and Shabalin, A. and Tischfield,
	J. and Todd, L. and Tzeng, J. Y. and van Grootheest, G. and Vink,
	J. M. and Wang, Q. and Wang, W. and Wang, W. and Willemsen, G. and
	Smit, J. H. and de Geus, E. J. and Yin, Z. and Penninx, B. W. and
	Boomsma, D. I.},
  title = {Heritability and genomics of gene expression in peripheral blood},
  journal = {Nat Genet},
  year = {2014},
  volume = {46},
  pages = {430-7},
  number = {5}
}

@ARTICLE{Wu2013,
  author = {Wu, L. and Candille, S. I. and Choi, Y. and Xie, D. and Jiang, L.
	and Li-Pook-Than, J. and Tang, H. and Snyder, M.},
  title = {Variation and genetic control of protein abundance in humans},
  journal = {Nature},
  year = {2013},
  volume = {499},
  pages = {79--82},
  number = {7456},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wunderink2003,
  author = {Wunderink, R. G. and Waterer, G. W.},
  title = {Genetics of sepsis and pneumonia.},
  journal = {Curr Opin Crit Care},
  year = {2003},
  volume = {9},
  pages = {384--389},
  number = {5},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Wunderink2002,
  author = {Wunderink, R. G. and Waterer, G. W. and Cantor, R. M. and Quasney,
	M. W.},
  title = {Tumor necrosis factor gene polymorphisms and the variable presentation
	and outcome of community-acquired pneumonia.},
  journal = {Chest},
  year = {2002},
  volume = {121},
  pages = {87S},
  number = {3 Suppl},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Xiao2011,
  author = {Xiao, W. and Mindrinos, M. N. and Seok, J. and Cuschieri, J. and
	Cuenca, A. G. and Gao, H. and Hayden, D. L. and Hennessy, L. and
	Moore, E. E. and Minei, J. P. and Bankey, P. E. and Johnson, J. L.
	and Sperry, J. and Nathens, A. B. and Billiar, T. R. and West, M.
	A. and Brownstein, B. H. and Mason, P. H. and Baker, H. V. and Finnerty,
	C. C. and Jeschke, M. G. and Lopez, M. C. and Klein, M. B. and Gamelli,
	R. L. and Gibran, N. S. and Arnoldo, B. and Xu, W. and Zhang, Y.
	and Calvano, S. E. and McDonald-Smith, G. P. and Schoenfeld, D. A.
	and Storey, J. D. and Cobb, J. P. and Warren, H. S. and Moldawer,
	L. L. and Herndon, D. N. and Lowry, S. F. and Maier, R. V. and Davis,
	R. W. and Tompkins, R. G. and Inflammation and Host Response to Injury
	Large-Scale Collaborative Research, Program},
  title = {A genomic storm in critically injured humans},
  journal = {J Exp Med},
  year = {2011},
  volume = {208},
  pages = {2581--2590},
  number = {13},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Yang2014,
  author = {Yang, C. S. and Chang, K. Y. and Rana, T. M.},
  title = {Genome-wide Functional Analysis Reveals Factors Needed at the Transition
	Steps of Induced Reprogramming},
  journal = {Cell Rep},
  year = {2014},
  volume = {8},
  pages = {327-337},
  number = {2},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Yang2002,
  author = {Yang, S. and Lim, Y. P. and Zhou, M. and Salvemini, P. and Schwinn,
	H. and Josic, D. and Koo, D. J. and Chaudry, I. H. and Wang, P.},
  title = {Administration of human inter-alpha-inhibitors maintains hemodynamic
	stability and improves survival during sepsis},
  journal = {Crit Care Med},
  year = {2002},
  volume = {30},
  pages = {617-622},
  number = {3}
}

@ARTICLE{Yang2012,
  author = {Yang, X.},
  title = {Use of functional genomics to identify candidate genes underlying
	human genetic association studies of vascular diseases},
  journal = {Arterioscler Thromb Vasc Biol},
  year = {2012},
  volume = {32},
  pages = {216--22},
  number = {2}
}

@ARTICLE{Yang2010,
  author = {Yang, Y. and Yang, K. S. and Hsann, Y. M. and Lim, V. and Ong, B.
	C.},
  title = {The effect of comorbidity and age on hospital mortality and length
	of stay in patients with sepsis.},
  journal = {J Crit Care},
  year = {2010},
  volume = {25},
  pages = {398--405},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Yazdani2014,
  author = {Yazdani, R. and Hakemi, M. G. and Sherkat, R. and Homayouni, V. and
	Farahani, R.},
  title = {Genetic defects and the role of helper T-cells in the pathogenesis
	of common variable immunodeficiency},
  journal = {Adv Biomed Res},
  year = {2014},
  volume = {3},
  pages = {2}
}

@ARTICLE{Yu2013,
  author = {Yu, L. and Wang, Z. and Chen, Y. and Ding, W. and Jia, H. and Chan,
	J. F. and To, K. K. and Chen, H. and Yang, Y. and Liang, W. and Zheng,
	S. and Yao, H. and Yang, S. and Cao, H. and Dai, X. and Zhao, H.
	and Li, J. and Bao, Q. and Chen, P. and Hou, X. and Li, L. and Yuen,
	K. Y.},
  title = {Clinical, virological, and histopathological manifestations of fatal
	human infections by avian influenza A(H7N9) virus},
  journal = {Clin Infect Dis},
  year = {2013},
  volume = {57},
  pages = {1449--1457},
  number = {10},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Zaas2009,
  author = {Zaas, A. K. and Chen, M. and Varkey, J. and Veldman, T. and Hero,
	A. O., 3rd and Lucas, J. and Huang, Y. and Turner, R. and Gilbert,
	A. and Lambkin-Williams, R. and Oien, N. C. and Nicholson, B. and
	Kingsmore, S. and Carin, L. and Woods, C. W. and Ginsburg, G. S.},
  title = {Gene expression signatures diagnose influenza and other symptomatic
	respiratory viral infections in humans},
  journal = {Cell Host Microbe},
  year = {2009},
  volume = {6},
  pages = {207--217},
  number = {3},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Zak2012,
  author = {Zak, D. E. and Andersen-Nissen, E. and Peterson, E. R. and Sato,
	A. and Hamilton, M. K. and Borgerding, J. and Krishnamurty, A. T.
	and Chang, J. T. and Adams, D. J. and Hensley, T. R. and Salter,
	A. I. and Morgan, C. A. and Duerr, A. C. and De Rosa, S. C. and Aderem,
	A. and McElrath, M. J.},
  title = {Merck Ad5/HIV induces broad innate immune activation that predicts
	CD8(+) T-cell responses but is attenuated by preexisting Ad5 immunity},
  journal = {Proc Natl Acad Sci U S A},
  year = {2012},
  volume = {109},
  pages = {E3503--3512},
  number = {50},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Zandman-Goddard2003,
  author = {Zandman-Goddard, G. and Shoenfeld, Y.},
  title = {SLE and infections},
  journal = {Clin Rev Allergy Immunol},
  year = {2003},
  volume = {25},
  pages = {29-40},
  number = {1}
}

@ARTICLE{Zeni1997,
  author = {Zeni, F. and Freeman, B. and Natanson, C.},
  title = {Anti-inflammatory therapies to treat sepsis and septic shock: a reassessment},
  journal = {Crit Care Med},
  year = {1997},
  volume = {25},
  pages = {1095--1100},
  number = {7},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Zhang2012,
  author = {Zhang, M. and Liang, L. and Morar, N. and Dixon, A. L. and Lathrop,
	G. M. and Ding, J. and Moffatt, M. F. and Cookson, W. O. and Kraft,
	P. and Qureshi, A. A. and Han, J.},
  title = {Integrating pathway analysis and genetics of gene expression for
	genome-wide association study of basal cell carcinoma},
  journal = {Hum Genet},
  year = {2012},
  volume = {131},
  pages = {615--623},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Zhernakova2009,
  author = {Zhernakova, A. and van Diemen, C. C. and Wijmenga, C.},
  title = {Detecting shared pathogenesis from the shared genetics of immune-related
	diseases},
  journal = {Nat Rev Genet},
  year = {2009},
  volume = {10},
  pages = {43--55},
  number = {1},
  owner = {edavenp},
  timestamp = {2014.10.05}
}

@ARTICLE{Zhou2012,
  author = {Zhou, Q. and Lee, G. S. and Brady, J. and Datta, S. and Katan, M.
	and Sheikh, A. and Martins, M. S. and Bunney, T. D. and Santich,
	B. H. and Moir, S. and Kuhns, D. B. and Long Priel, D. A. and Ombrello,
	A. and Stone, D. and Ombrello, M. J. and Khan, J. and Milner, J.
	D. and Kastner, D. L. and Aksentijevich, I.},
  title = {A hypermorphic missense mutation in PLCG2, encoding phospholipase
	Cgamma2, causes a dominantly inherited autoinflammatory disease with
	immunodeficiency},
  journal = {Am J Hum Genet},
  year = {2012},
  volume = {91},
  pages = {713--720},
  number = {4},
  owner = {edavenp},
  timestamp = {2014.09.23}
}

@ARTICLE{Zhou2011,
  author = {Zhou, Z. and Xue, Q. and Wan, Y. and Yang, Y. and Wang, J. and Hung,
	T.},
  title = {Lysosome-associated membrane glycoprotein 3 is involved in influenza
	A virus replication in human lung epithelial (A549) cells},
  journal = {Virol J},
  year = {2011},
  volume = {8},
  pages = {384}
}

@ARTICLE{Adzhubei2010,
  author = {Adzhubei, I. A. and Schmidt, S. and Peshkin, L. and Ramensky, V.
	E. and Gerasimova, A. and Bork, P. and Kondrashov, A. S. and Sunyaev,
	S. R.},
  title = {A method and server for predicting damaging missense mutations},
  journal = {Nat Methods},
  year = {2010},
  volume = {7},
  pages = {248--249},
  number = {4}
}

@ARTICLE{Jostins2012,
  author = {Jostins, L. and Ripke, S. and Weersma, R. K. and Duerr, R. H. and
	McGovern, D. P. and Hui, K. Y. and Lee, J. C. and Schumm, L. P. and
	Sharma, Y. and Anderson, C. A. and Essers, J. and Mitrovic, M. and
	Ning, K. and Cleynen, I. and Theatre, E. and Spain, S. L. and Raychaudhuri,
	S. and Goyette, P. and Wei, Z. and Abraham, C. and Achkar, J. P.
	and Ahmad, T. and Amininejad, L. and Ananthakrishnan, A. N. and Andersen,
	V. and Andrews, J. M. and Baidoo, L. and Balschun, T. and Bampton,
	P. A. and Bitton, A. and Boucher, G. and Brand, S. and Buning, C.
	and Cohain, A. and Cichon, S. and D'Amato, M. and De Jong, D. and
	Devaney, K. L. and Dubinsky, M. and Edwards, C. and Ellinghaus, D.
	and Ferguson, L. R. and Franchimont, D. and Fransen, K. and Gearry,
	R. and Georges, M. and Gieger, C. and Glas, J. and Haritunians, T.
	and Hart, A. and Hawkey, C. and Hedl, M. and Hu, X. and Karlsen,
	T. H. and Kupcinskas, L. and Kugathasan, S. and Latiano, A. and Laukens,
	D. and Lawrance, I. C. and Lees, C. W. and Louis, E. and Mahy, G.
	and Mansfield, J. and Morgan, A. R. and Mowat, C. and Newman, W.
	and Palmieri, O. and Ponsioen, C. Y. and Potocnik, U. and Prescott,
	N. J. and Regueiro, M. and Rotter, J. I. and Russell, R. K. and Sanderson,
	J. D. and Sans, M. and Satsangi, J. and Schreiber, S. and Simms,
	L. A. and Sventoraityte, J. and Targan, S. R. and Taylor, K. D. and
	Tremelling, M. and Verspaget, H. W. and De Vos, M. and Wijmenga,
	C. and Wilson, D. C. and Winkelmann, J. and Xavier, R. J. and Zeissig,
	S. and Zhang, B. and Zhang, C. K. and Zhao, H. and International,
	I. B. D. Genetics Consortium and Silverberg, M. S. and Annese, V.
	and Hakonarson, H. and Brant, S. R. and Radford-Smith, G. and Mathew,
	C. G. and Rioux, J. D. and others },
  title = {Host-microbe interactions have shaped the genetic architecture of
	inflammatory bowel disease},
  journal = {Nature},
  year = {2012},
  volume = {491},
  pages = {119--124},
  number = {7422}
}

@ARTICLE{Kumar2009,
  author = {Kumar, P. and Henikoff, S. and Ng, P. C.},
  title = {Predicting the effects of coding non-synonymous variants on protein
	function using the SIFT algorithm},
  journal = {Nat Protoc},
  year = {2009},
  volume = {4},
  pages = {1073--1081},
  number = {7}
}