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AxonMask.tiff
AxonMask.tiff
 
 
CMT_axonalTransport_Plate5.R
CMT_axonalTransport_Plate5.R
 
 
CMT_track5.m
CMT_track5.m
 
 
Dimos CMT iPSc.pdf
Dimos CMT iPSc.pdf
 
 
DmitriSets.m
DmitriSets.m
 
 
DmitriSets2.m
DmitriSets2.m
 
 
DmitriSets3.m
DmitriSets3.m
 
 
DmitriSets5.m
DmitriSets5.m
 
 
Kymograph.tiff
Kymograph.tiff
 
 
MatovAxonMitochondria.r
MatovAxonMitochondria.r
 
 
MatovIperian.r
MatovIperian.r
 
 
MatovMitochondriaAxonDec14_2011.pdf
MatovMitochondriaAxonDec14_2011.pdf
 
 
MatovParkinsonsLysosomesLongTracksAstrocyte.avi
MatovParkinsonsLysosomesLongTracksAstrocyte.avi
 
 
MitoSize_Update01.pdf
MitoSize_Update01.pdf
 
 
MitochondriaAxonTracking_79363_7007.pdf
MitochondriaAxonTracking_79363_7007.pdf
 
 
MotionFigs1.pdf
MotionFigs1.pdf
 
 
README.md
README.md
 
 
ScaleSpaceDetectionMitochondriaAxon.png
ScaleSpaceDetectionMitochondriaAxon.png
 
 
adaptivethresh.m
adaptivethresh.m
 
 
all_tracks.tiff
all_tracks.tiff
 
 
avgV_VHL_analysis_V13.R
avgV_VHL_analysis_V13.R
 
 
awt.m
awt.m
 
 
axon_trace.tiff
axon_trace.tiff
 
 
bfopen.m
bfopen.m
 
 
blur.m
blur.m
 
 
bpass.m
bpass.m
 
 
bwconvexhull.m
bwconvexhull.m
 
 
bytscl.m
bytscl.m
 
 
curve2mask.m
curve2mask.m
 
 
curve2mask1.m
curve2mask1.m
 
 
cwatershed.m
cwatershed.m
 
 
cwatershed1.m
cwatershed1.m
 
 
despeckle.m
despeckle.m
 
 
distance2curve.m
distance2curve.m
 
 
distanceCellEdge.m
distanceCellEdge.m
 
 
dn2tif.m
dn2tif.m
 
 
filter124.m
filter124.m
 
 
filtfilt.m
filtfilt.m
 
 
find_outliers.m
find_outliers.m
 
 
getkey.m
getkey.m
 
 
gm_areaclose.m
gm_areaclose.m
 
 
gm_areaopen.m
gm_areaopen.m
 
 
gm_asf.m
gm_asf.m
 
 
gm_cdil.m
gm_cdil.m
 
 
gm_closeth.m
gm_closeth.m
 
 
gm_gradm.m
gm_gradm.m
 
 
gm_infrec.m
gm_infrec.m
 
 
gm_intersec.m
gm_intersec.m
 
 
gm_minimum.m
gm_minimum.m
 
 
gm_obr.m
gm_obr.m
 
 
gm_obrcbr.m
gm_obrcbr.m
 
 
gm_openrec.m
gm_openrec.m
 
 
gm_openrecth.m
gm_openrecth.m
 
 
gm_openth.m
gm_openth.m
 
 
gm_smooth.m
gm_smooth.m
 
 
gm_subm.m
gm_subm.m
 
 
gm_threshad.m
gm_threshad.m
 
 
gm_union.m
gm_union.m
 
 
hessianeigs.asv
hessianeigs.asv
 
 
hessianeigs.m
hessianeigs.m
 
 
hysthresh.m
hysthresh.m
 
 
imoverlay.m
imoverlay.m
 
 
imscroll.m
imscroll.m
 
 
imscroll1.m
imscroll1.m
 
 
initTrackingParams.m
initTrackingParams.m
 
 
lentrk.m
lentrk.m
 
 
localAvgStd2D.m
localAvgStd2D.m
 
 
locate_axon.m
locate_axon.m
 
 
locate_axon1.m
locate_axon1.m
 
 
locmax2d.m
locmax2d.m
 
 
meij_hessianeigs.m
meij_hessianeigs.m
 
 
minmax.m
minmax.m
 
 
neu_bwthin.m
neu_bwthin.m
 
 
neu_fjunc.m
neu_fjunc.m
 
 
neu_rmbranch.m
neu_rmbranch.m
 
 
neu_rmedge.m
neu_rmedge.m
 
 
neu_segmcombine.m
neu_segmcombine.m
 
 
neu_skellen.m
neu_skellen.m
 
 
nonmaxsuppts.m
nonmaxsuppts.m
 
 
normalise.m
normalise.m
 
 
overlay.m
overlay.m
 
 
preprAxon.m
preprAxon.m
 
 
regiongrow.m
regiongrow.m
 
 
regiongrowing.m
regiongrowing.m
 
 
regions_grow2.m
regions_grow2.m
 
 
rgb.m
rgb.m
 
 
select_axon.m
select_axon.m
 
 
select_axon1.m
select_axon1.m
 
 
set1edge_spline.mat
set1edge_spline.mat
 
 
set1normal_matrix.mat
set1normal_matrix.mat
 
 
set1pixel_edge.mat
set1pixel_edge.mat
 
 
set2edge_spline.mat
set2edge_spline.mat
 
 
set2normal_matrix.mat
set2normal_matrix.mat
 
 
set2pixel_edge.mat
set2pixel_edge.mat
 
 
spotDetector.m
spotDetector.m
 
 
thglobal_yen.m
thglobal_yen.m
 
 
tofloat.m
tofloat.m
 
 
toggle.m
toggle.m
 
 
top5.m
top5.m
 
 
track.m
track.m
 
 

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Matlab and R code for the motion and morphology analysis of mitochondria in axonal induced pluripotent stem cells obtained from the skin of Alzheimer's patients and lysosomes in Parkinson's astrocytes by Dmitri Volfson (iPierian/Pfizer) and Alexandre Matov

See also the AVI file with a movie on Parkinson's disease of motion tracking of lysosomes in a mouse astrocyte carrying the RRK2-G2019S mutation

For further information, please refer to: http://dx.doi.org/10.13140/RG.2.2.24918.01605 (7 PDF files)

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www.researchgate.net/publication/375378322_Analysis_of_Mitochondrion_Lysosome_and_Microtubule_Dynamics_in_Alzheimer%27s_and_Parkinson%27s_Disease_Cells_for_Drug_Discovery_2011_-_2015

Topics

drug-discovery motion-tracking alzheimer-disease-prediction adaptive-thresholding morphology-analysis amyotrophic-lateral-sclerosis size-and-position morphology-metrics scale-space-filtering induced-pluripotent-stem-cells scale-space-feature-detection hessian-matrices patient-derived-cells stationary-wavelet-transform mitochondria-axons secondary-assay functional-assay kimograph-analysis axonal-transport trajectory-reconstruction

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