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UCSC Data Integrator and Variant Annotation Integrator.

Authors
  • As, Hinrichs
  • Bj, Raney
  • Ml, Speir
  • B, Rhead
  • J, Casper
  • D, Karolchik
  • Rm, Kuhn
  • Kr, Rosenbloom
  • As, Zweig
  • David Haussler
  • Wj, Kent
Type
Published Article
Journal
Bioinformatics
Publisher
Oxford University Press
Publication Date
May 15, 2016
Volume
32
Issue
9
Pages
1430–1432
Identifiers
DOI: 10.1093/bioinformatics/btv766
Source
UCSC Cancer biomedical-ucsc
License
Green

Abstract

Two new tools on the UCSC Genome Browser web site provide improved ways of combining information from multiple datasets, optionally including the user's own custom track data and/or data from track hubs. The Data Integrator combines columns from multiple data tracks, showing all items from the first track along with overlapping items from the other tracks. The Variant Annotation Integrator is tailored to adding functional annotations to variant calls; it offers a more restricted set of underlying data tracks but adds predictions of each variant's consequences for any overlapping or nearby gene transcript. When available, it optionally adds additional annotations including effect prediction scores from dbNSFP for missense mutations, ENCODE regulatory summary tracks and conservation scores.

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