Universal count correction for high-throughput sequencing.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 24603409.
- Also identified by DOI 10.1371/journal.pcbi.1003494 and PMC identifier 3945112.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
We show that existing RNA-seq, DNase-seq, and ChIP-seq data exhibit overdispersed per-base read count distributions that are not matched to existing computational method assumptions. To compensate for this overdispersion we introduce a nonparametric and universal method for processing per-base sequencing read count data called FIXSEQ. We demonstrate that FIXSEQ substantially improves the performance of existing RNA-seq, DNase-seq, and ChIP-seq analysis tools when compared with existing alternatives.
Medical subject headings
- High-Throughput Nucleotide Sequencing