ARG_Symposium

Draft Schedule Below. Please check for updates!

Sessions will run from 1-4 each day with food provided

Please complete readings in advance of each session

Please bring a laptop with OSCAR access if possible

Schedule and Readings

Wednesday, Jan 8th: Introduction to ARGs

Presentation: "Introduction to ARGs" by Emilia Huerta-Sanchez

• Reading: Hein, Schierup and Wiuf (2005) Gene Genealogies: Variation and Evolution. Chapter 5. Oxford University Press.
• Workshop: Installing Relate, ARGWeaver. Relate toy dataset.

Thursday, Jan 9th: ARGWeaver

• Reading: Rasmussen, Hubisz, Gronau and Siepal (2013) Genome-wide Inference of Ancestral Recombination Graphs. PLOS Genetics

Friday, Jan 10th: ARGWeaver-D

• Reading: Hubisz, Williams and Siepal (2019) Mapping gene flow between ancient hominins through demography-aware inference of the ancestral recombination graph. bioRxiv

Monday, Jan 13th: Relate

Presentation: TBD by Sohini Ramachandran

PRESENTATION STARTING AT 2:30pm, Workshop time 1-2:30

• Reading: Speidel, Forest, Shi and Meyers (2019) A method for genome-wide genealogy estimation for thousands of samples. Nature Genetics

Tuesday, Jan 14th: tsinfer

• Reading: Kelleher, Wong, Wahns, Fadil, Albers and McVean (2019) Inferring whole-genome histories in large population datasets. Nature Genetics

Wednesday, Jan 15th: Applications of ARGs

Presentations: "Ancestral Haplotype Reconstruction in Endogamous Populations using Identity-By-Descent" by Sara Mathieson

“Using ancient DNA to resolve complex evolutionary histories” by Iain Mathieson

• Reading: Mathieson (2019) Limited evidence for selection at the FADS locus in Native American populations. bioRxiv
• Cox, Ruff, Meier and Mathieson (2019) "Genetic contributions to variation in human stature in prehistoric Europe". PNAS
• Additional reading provided to attendees during previous sessions: "Ancestral haplotype reconstruction in endogamous populations using Identity-by-Descent"