Interrogations of single-cell RNA splicing landscapes with SCASL define new cell identities with physiological relevance.

ABSTRACT: RNA splicing shapes the gene regulatory programs that underlie various physiological and disease processes. Here, we present the SCASL (single-cell clustering based on alternative splicing landscapes) method for interrogating the heterogeneity of RNA splicing with single-cell RNA-seq data. SCASL resolves the issue of biased and sparse data coverage on single-cell RNA splicing and provides a new scheme for classifications of cell identities. With previously published datasets as examples, SCASL identifies new cell clusters indicating potentially precancerous and early-tumor stages in triple-negative breast cancer, illustrates cell lineages of embryonic liver development, and provides fine clusters of highly heterogeneous tumor-associated CD4 and CD8 T cells with functional and physiological

SUBMITTER: Xiang X 

PROVIDER: S-EPMC10925056 | biostudies-literature | 2024 Mar

REPOSITORIES: biostudies-literature