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Cofea: correlation-based feature selection for single-cell chromatin accessibility data. | LitMetric

Cofea: correlation-based feature selection for single-cell chromatin accessibility data.

Brief Bioinform

Ministry of Education Key Laboratory of Bioinformatics, Bioinformatics Division at the Beijing National Research Center for Information Science and Technology, Center for Synthetic and Systems Biology, Department of Automation, Tsinghua University, Beijing 100084, China.

Published: November 2023

Single-cell chromatin accessibility sequencing (scCAS) technologies have enabled characterizing the epigenomic heterogeneity of individual cells. However, the identification of features of scCAS data that are relevant to underlying biological processes remains a significant gap. Here, we introduce a novel method Cofea, to fill this gap. Through comprehensive experiments on 5 simulated and 54 real datasets, Cofea demonstrates its superiority in capturing cellular heterogeneity and facilitating downstream analysis. Applying this method to identification of cell type-specific peaks and candidate enhancers, as well as pathway enrichment analysis and partitioned heritability analysis, we illustrate the potential of Cofea to uncover functional biological process.

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Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10782922PMC
http://dx.doi.org/10.1093/bib/bbad458DOI Listing

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