OncoRank: A pan-cancer method of combining survival correlations and its application to mRNAs, miRNAs, and lncRNAs
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Abstract
OncoRank adopts a method for finding recurrent miRNA-target interactions to find genes with consistent relationships to patient survival across cancers. Genes are first ranked in each cancer by their Cox coefficients, and these ranks are then combined by applying Fisher's method. Using ranks instead of the raw coefficients or p-values allows each cancer to be weighted equally and prevents bias from cancers with large numbers of patients. OncoLnc (http://www.oncolnc.org) is a newly available resource for Cox coefficients and utilizes data from 21 cancers in The Cancer Genome Atlas. Using this resource I applied OncoRank to mRNAs, miRNAs, and lncRNAs and in each case found consistently harmful or protective genes. These genes may be members of central cancer pathways and should be of interest to cancer researchers.
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2016. OncoRank: A pan-cancer method of combining survival correlations and its application to mRNAs, miRNAs, and lncRNAs. PeerJ Preprints 4:e2574v1 https://doi.org/10.7287/peerj.preprints.2574v1Author comment
This is a preprint submission to PeerJ Preprints.
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Competing Interests
I operate omnesres.com, oncolnc.org, and prepubmed.org.
Author Contributions
Jordan Anaya conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.
Data Deposition
The following information was supplied regarding data availability:
1) GitHub
2) OncoRank
3) https://github.com/OmnesRes/OncoRank
Funding
The author received no funding for this work.