Format

Send to:

Choose Destination
See comment in PubMed Commons below
Nucleic Acids Res. 2013 Jan;41(Database issue):D1021-6. doi: 10.1093/nar/gks1170. Epub 2012 Nov 27.

GenomeRNAi: a database for cell-based and in vivo RNAi phenotypes, 2013 update.

Author information

  • 1Division Signaling and Functional Genomics, German Cancer Research Center (DKFZ), D-69120 Heidelberg, Germany.

Abstract

RNA interference (RNAi) represents a powerful method to systematically study loss-of-function phenotypes on a large scale with a wide variety of biological assays, constituting a rich source for the assignment of gene function. The GenomeRNAi database (http://www.genomernai.org) makes available RNAi phenotype data extracted from the literature for human and Drosophila. It also provides RNAi reagent information, along with an assessment as to their efficiency and specificity. This manuscript describes an update of the database previously featured in the NAR Database Issue. The new version has undergone a complete re-design of the user interface, providing an intuitive, flexible framework for additional functionalities. Screen information and gene-reagent-phenotype associations are now available for download. The integration with other resources has been improved by allowing in-links via GenomeRNAi screen IDs, or external gene or reagent identifiers. A distributed annotation system (DAS) server enables the visualization of the phenotypes and reagents in the context of a genome browser. We have added a page listing 'frequent hitters', i.e. genes that show a phenotype in many screens, which might guide on-going RNAi studies. Structured annotation guidelines have been established to facilitate consistent curation, and a submission template for direct submission by data producers is available for download.

PMID:
23193271
[PubMed - indexed for MEDLINE]
PMCID:
PMC3531141
Free PMC Article
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for HighWire Icon for PubMed Central
    Loading ...
    Write to the Help Desk