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bioRxiv · 10.1101/864389

UniPath: A uniform approach for pathway and gene-set based analysis of heterogeneity in single-cell epigenome and transcriptome profiles.

Chawla, S.·Samydurai, S.·Kong, S. L.·Wang, Z.·TAM, W. L.·Sengupta, D.·KUMAR, V.
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Abstract

Here, we introduce UniPath, for representing single-cells using pathway and gene-set enrichment scores by a transformation of their open-chromatin or gene-expression profiles. Besides being robust to variability in dropout, UniPath provides consistency and scalability in estimating gene-set enrichment scores for every cell. UniPaths approach of predicting temporal-order of single-cells using their gene-set activity score enables suppression of known covariates. UniPath based analysis of mouse cell atlas yielded surprising, albeit biologically-meaningful co-clustering of cell-types from distant organs and helped in annotating many unlabeled cells. By enabling unconventional analysis, UniPath also proves to be useful in inferring context-specific regulation in cancer cells.

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Chawla, S., Samydurai, S., Kong, S. L., Wang, Z., TAM, W. L., Sengupta, D., KUMAR, V.. 2019-12-11. UniPath: A uniform approach for pathway and gene-set based analysis of heterogeneity in single-cell epigenome and transcriptome profiles.. https://doi.org/10.1101/864389

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