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Research
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Data & Code
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Evolution of core archetypal phenotypes in progressive high grade serous ovarian cancer
Nath et al. Nature Communications. 2021 May 24;12(1):3039.
Scripts for archetype analysis and multitask learning with scRNA-seq data to identify key phenotypes.
scRNA-seq data from 39 malignant fluid samples from high-grade ovarian cancer patients.
Discovering long noncoding RNA predictors of anticancer drug sensitivity beyond protein-coding genes
Nath et al. Proc Natl Acad Sci U S A. 2019 Oct 29;116(44):22020-22029.
Scripts and data for identifying novel lncRNA biomarkers of several hundred anticancer drugs across nearly 1000 cell lines.
iMIRAGE: an R package to impute microRNA expression using protein-coding genes.
Nath et al. Bioinformatics. 2020 Apr 15;36(8):2608-2610.
iMIRAGE: an R-package to impute miRNA expression using protein-coding genes.
iMIRAGE vignette and package demo.
Long non-coding RNA transcriptome of uncharacterized samples can be accurately imputed using protein-coding genes.
Nath et al. Brief Bioinform. 2020 Mar 23;21(2):637-648.
Scripts and test data associated with imputation of uncharacterized lncRNAs.
Scripts, pipelines and workflows developed for the U54 Bioinformatics Working Group at City of Hope
