Uncovering transcriptional dark matter via gene annotation independent single-cell RNA sequencing analysis.

ABSTRACT: Conventional scRNA-seq expression analyses rely on the availability of a high quality genome annotation. Yet, as we show here with scRNA-seq experiments and analyses spanning human, mouse, chicken, mole rat, lemur and sea urchin, genome annotations are often incomplete, in particular for organisms that are not routinely studied. To overcome this hurdle, we created a scRNA-seq analysis routine that recovers biologically relevant transcriptional activity beyond the scope of the best available genome annotation by performing scRNA-seq analysis on any region in the genome for which transcriptional products are detected. Our tool generates a single-cell expression matrix for all transcriptionally active regions (TARs), performs single-cell TAR expression analysis to identify biologically signif

SUBMITTER: Wang MFZ 

PROVIDER: S-EPMC8042062 | biostudies-literature | 2021 Apr

REPOSITORIES: biostudies-literature