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WGE: a CRISPR database for genome engineering.

Alex Hodgkins1, Anna Farne1, Sajith Perera1

  • 1Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.

Bioinformatics (Oxford, England)
|May 17, 2015
PubMed
Summary
This summary is machine-generated.

The Wellcome Trust Sanger Institute Genome Editing database (WGE) offers novel methods for computing and visualizing CRISPR sites. This tool aids in rapid identification of high-quality CRISPR sites and gene targeting vector design for any genome.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Genome Editing

Background:

  • CRISPR-Cas9 technology has advanced rapidly, necessitating efficient tools for identifying and scoring CRISPR sites.
  • Numerous online and stand-alone tools exist for whole-genome CRISPR site analysis.

Purpose of the Study:

  • To introduce the Wellcome Trust Sanger Institute Genome Editing database (WGE).
  • To describe WGE's novel methods for computing, visualizing, and selecting optimal CRISPR sites within a genome browser.
  • To present WGE's integrated functionality for gene targeting vector design.

Main Methods:

  • Development of novel computational methods for CRISPR site identification and scoring.
  • Integration of CRISPR site data, off-target information, and gene targeting vector design within a genome browser environment.
  • Implementation of filters for rapid identification of high-quality CRISPR sites.

Main Results:

  • The WGE database stores single and paired CRISPR sites with pre-calculated off-target information for mouse and human exomes.
  • Simple and intuitive scoring and display of off-target sites.
  • A tool for designing and displaying gene targeting vectors alongside gene models, protein translation, and variation tracks.

Conclusions:

  • WGE provides an open, extensible platform for computing and presenting CRISPR sites for any genome.
  • The database facilitates rapid identification of optimal CRISPR sites and aids in gene targeting vector design.
  • WGE enhances genome editing research by offering a comprehensive and user-friendly tool.