GEO series
Impact of ribosomal depletion, PCR ramp rate, and fragment length on RNA-seq
GSE288460
Mus musculus
Expression profiling by high throughput sequencing
34 samples
2025/02/06
GPL24247
Summary
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.
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Paper (PMID 39975309) ↗
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