Numerical and structural chromosomal instability metrics across human cancer

Here we compare six CINmetrics capturing copy number aberrations as a measure of chromosomal instability, as either numerical alterations, structural alterations, or a combination of the two across 33 cancer data sets from The Cancer Genome Atlas.

Authors

Sasha Thalluri^1*, Vishal H. Oza^1* , Tabea M. Soelter¹, Jennifer L. Fisher¹, and Brittany N. Lasseigne¹

1 Department of Cell, Developmental and Integrative Biology, School of Medicine, University of Alabama at Birmingham, Birmingham, Alabama, USA

*co-first author

Code

• src
  • tcga_data.Rmd -For downloading TCGA data
  • CINmetrics_analysis.Rmd -Calculating CINmetrics using CINmetrics package
  • CINmetrics_analysis_sex.Rmd -Analyzing CINmetrics distribution with respect to sex
  • CINmetrics_anaysis_tnm.Rmd -Analyzing CINmetrics disctribution with respect to clinical variables

License

MIT