DIMPL: a bioinformatics pipeline for the discovery of structured noncoding RNA motifs in bacteria | Zendy

Kenneth I. Brewer | Zendy; Glenn J Gaffield | Zendy; Malavika Puri | Zendy; Ronald R. Breaker | Zendy

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DIMPL: a bioinformatics pipeline for the discovery of structured noncoding RNA motifs in bacteria

Author(s) -

Kenneth I. Brewer,

Glenn J Gaffield,

Malavika Puri,

Ronald R. Breaker

Publication year - 2021

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btab624

Subject(s) - pipeline (software) , computer science , computational biology , riboswitch , non coding rna , intergenic region , identification (biology) , rna , biology , genetics , gene , genome , programming language , botany

Recent efforts to identify novel bacterial structured noncoding RNA (ncRNA) motifs through searching long, GC-rich intergenic regions (IGRs) have revealed several new classes, including the recently validated HMP-PP riboswitch. The DIMPL (Discovery of Intergenic Motifs PipeLine) discovery pipeline described herein enables rapid extraction and selection of bacterial IGRs that are enriched for structured ncRNAs. Moreover, DIMPL automates the subsequent computational steps necessary for their functional identification.

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