Estimating intraclonal heterogeneity and subpopulation changes from bulk expression profiles in CMap.

ABSTRACT: The connectivity among signatures upon perturbations curated in the CMap library provides a valuable resource for understanding therapeutic pathways and biological processes associated with the drugs and diseases. However, because of the nature of bulk-level expression profiling by the L1000 assay, intraclonal heterogeneity and subpopulation compositional change that could contribute to the responses to perturbations are largely neglected, hampering the interpretability and reproducibility of the connections. In this work, we proposed a computational framework, Premnas, to estimate the abundance of undetermined subpopulations from L1000 profiles in CMap directly according to an ad hoc subpopulation representation learned from a well-normalized batch of single-cell RNA-seq datasets by the a

SUBMITTER: Hsieh CY 

PROVIDER: S-EPMC9187873 | biostudies-literature | 2022 Oct

REPOSITORIES: biostudies-literature