No Promoter Left Behind (NPLB): learn de novo promoter architectures from genome-wide transcription start sites.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 26530723.
- Also identified by DOI 10.1093/bioinformatics/btv645 and PMC identifier 4795619.
- 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
Promoters have diverse regulatory architectures and thus activate genes differently. For example, some have a TATA-box, many others do not. Even the ones with it can differ in its position relative to the transcription start site (TSS). No Promoter Left Behind (NPLB) is an efficient, organism-independent method for characterizing such diverse architectures directly from experimentally identified genome-wide TSSs, without relying on known promoter elements. As a test case, we show its application in identifying novel architectures in the fly genome. Web-server at http://nplb.ncl.res.in Standalone also at https://github.com/computationalBiology/NPLB/ (Mac OSX/Linux). l.narlikar@ncl.res.in Supplementary data are available at Bioinformatics online.
Medical subject headings
- Promoter Regions, Genetic