UNIT 11.12 BEDTools: The Swiss‐Army Tool for Genome Feature Analysis. Issue 1 (8th September 2014)

• Record Type: Journal Article
• Authors: Quinlan, Aaron R.
• Is Part Of: Current protocols in bioinformatics. Volume 47:Issue 1(2014)
• Page Start: 11.12.1
• Page End: 11.12.34
• Publication Date: 2014-09-08
• Subjects: genomics -- bioinformatics -- genome analysis -- genome intervals -- genome features; Bioinformatics -- Laboratory manuals; Nucleotide sequence -- Laboratory manuals; Amino acid sequence -- Laboratory manuals; Base Sequence; Amino Acid Sequence; Computational Biology -- methods; Databases, Genetic; Proteins -- analysis; Sequence Analysis -- methods; Sequence Homology; Amino acid sequence; Bioinformatics; Nucleotide sequence; Laboratory Manuals; Laboratory manuals; 570.285
• DOI: 10.1002/0471250953.bi1112s47
• Languages: English
• ISSNs: 1934-3396

Abstract

Abstract: Technological advances have enabled the use of DNA sequencing as a flexible tool to characterize genetic variation and to measure the activity of diverse cellular phenomena such as gene isoform expression and transcription factor binding. Extracting biological insight from the experiments enabled by these advances demands the analysis of large, multi‐dimensional datasets. This unit describes the use of the BEDTools toolkit for the exploration of high‐throughput genomics datasets. Several protocols are presented for common genomic analyses, demonstrating how simple BEDTools operations may be combined to create bespoke pipelines addressing complex questions. Curr. Protoc. Bioinform . 47:11.12.1‐11.12.34. © 2014 by John Wiley & Sons, Inc.