dan609 / myo

Trajectory and colocalization analysis

Bobkov et al., Replicative senescence in MSCWJ-1 human umbilical cord mesenchymal stem cells is marked by characteristic changes in motility, cytoskeletal organization, and RhoA localization. Molecular Biology Reports, volume 47, pages 3867–3883 (2020). https://doi.org/10.1007/s11033-020-05476-6

Data and scripts used to generate the statistical analyses of protein colocalization, cell shape, F-actin fractality, and cell motility data.

R scripts:

CI.R The proportion of cells with pronounced activity of beta-galactosidase during MSCWJ-1 cell line cultivation.

coloc.R Statistical analysis of colocalozation coefficients.

traj_analysis_win.R Cell movement tracks analysis.

traj_analysis_mac.R Mac version differs in path selection function.

lmfrac.R Actin cytoskeleton fractality analysis.

shape.R Cell shape analysis.

Ipython notebook:

significance_plot.ipynb Multiple pairwise comparison of Myosin-9/F-actin colocalization data from long-term cultivation of WJMSC-1 cells. Probe - passage number. Rval,tM1,tM2,bTau,Rs - colocalization coefficients calculated in ImageJ Coloc2 plugin.

Data:

alltracks.csv Tracks collected from intravital confocal microscopy using CQ1 cytometer.

colocM9.csv Myosin-9/F-actin colocalization data from long-term cultivation of WJMSC-1 cells. Probe - passage number. Rval,tM1,tM2,bTau,Rs - colocalization coefficients calculated in ImageJ Coloc2 plugin.

colocRhoAF.csv RhoA/F-actin colocalization data from long-term cultivation of WJMSC-1 cells. Probe - passage number. Rval,tM1,tM2,bTau,Rs - colocalization coefficients calculated in ImageJ Coloc2 plugin.

colocRhoAH.csv RhoA/F-actin colocalization data from long-term cultivation of WJMSC-1 cells. Probe - passage number. Rval,tM1,tM2,bTau,Rs - colocalization coefficients calculated in ImageJ Coloc2 plugin.

coloc_aA4-act.csv Alpha-actinin-4/F-actin colocalization data from long-term cultivation of WJMSC-1 cells. Probe - passage number. Rval,tM1,tM2,bTau,Rs - colocalization coefficients calculated in ImageJ Coloc2 plugin.

coloc_aA4-nuc.csv Alpha-actinin-4/Hoeochst33444 colocalization data from long-term cultivation of WJMSC-1 cells. Probe - passage number. Rval,tM1,tM2,bTau,Rs - colocalization coefficients calculated in ImageJ Coloc2 plugin.

wj1fracmod.csv Data for Actin cytoskeleton fractality analysis. LCFD for F-actin was obtained from confocal images of rhodamine-phalloidin stained MSCWJ-1 cells using ImageJ FracLac plugin.

wj1shape.csv Data for cell shape analysis. Cell shape parameters were obtained from CQ1 confocal images of MSCWJ-1 cells at different passages.