Usage

Give a look to the manual to start

Code documentation

• Download R objects documentation in pdf
• Library of functions needed to post-process the basal expression profiles of the cell lines in the GDSC [1] panel pdf
• Library of functions needed to perform GSEA [2], to compute Connection Scores [3] and their statistical significance pdf
• Library of functions needed to perform iterative network guided connectivity mapping pdf
• Library of functions needed to validate the approach through the signature reversion paradigm [4] pdf

References

[1] Garnett,M.J. et al. (2012) Systematic identification of genomic markers of drug sensitivity in cancer cells. Nature, 483, 570–575.

[2] Subramanian,A. et al. (2005) Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proceedings of the National Academy of Sciences of the United States of America, 102, 15545.

[3] Lamb,J. et al. (2006) The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease. Science, 313, 1929.

[4] Iorio,F. et al. (2013) Transcriptional data: a new gateway to drug repositioning? Drug Discovery Today, 18, 350–357.