OncoLnc: Linking TCGA survival data to mRNAs, miRNAs, and lncRNAs
- Published
- Accepted
- Subject Areas
- Bioinformatics, Computational Biology, Databases
- Keywords
- TCGA, cancer, RNA-SEQ, mRNA, miRNA, lncRNA, Kaplan-Meier, Cox regression, database
- Copyright
- © 2016 Anaya
- Licence
- This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ PrePrints) and either DOI or URL of the article must be cited.
- Cite this article
- 2016. OncoLnc: Linking TCGA survival data to mRNAs, miRNAs, and lncRNAs. PeerJ PrePrints 4:e1780v1 https://doi.org/10.7287/peerj.preprints.1780v1
Abstract
OncoLnc is a tool for interactively exploring survival correlations, and for downloading clinical data coupled to expression data for mRNAs, miRNAs, or lncRNAs. OncoLnc contains survival data for 8,647 patients from 21 cancer studies performed by The Cancer Genome Atlas (TCGA), along with RNA-SEQ expression for mRNAs and miRNAs from TCGA, and lncRNA expression from MiTranscriptome beta. Storing this data gives users the ability to separate patients by gene expression, and then create publication-quality Kaplan-Meier plots or download the data for further analyses. OncoLnc also stores precomputed survival analyses, allowing users to quickly explore survival correlations for up to 21 cancers in a single click. This resource allows researchers studying a specific gene to quickly investigate if it may have a role in cancer, and the supporting data allows researchers studying a specific cancer to identify the mRNAs, miRNAs, and lncRNAs most correlated with survival, and researchers looking for a novel lncRNA involved with cancer lists of potential candidates. OncoLnc is available at http://www.oncolnc.org
Author Comment
This is a submission to PeerJ Computer Science for review.