Impact of ribosomal depletion, PCR ramp rate, and fragment length on RNA-seq

ABSTRACT: Coverage of short-read RNA-seq is highly non-uniform across transcripts even in genes with only one expressed isoform, contrary to biological expectation. We investigate the impact of several library preparation factors on the non-uniformity of coverage. Specifically, a mouse liver sample is prepared under varying ribosomal depletion (PolyA / rRNA digestion / rRNA pull-down / NoSelection), PCR ramp rate, and fragment length along with one heart sample without selection.

ORGANISM(S): Mus musculus

PROVIDER: GSE288460 | GEO | 2025/02/06

REPOSITORIES: GEO