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GenomeRNAi: a database for cell-based and in vivo RNAi phenotypes, 2013 update
Esther E Schmidt1, Oliver Pelz, Svetlana Buhlmann
1Division Signaling and Functional Genomics, German Cancer Research Center (DKFZ), D-69120 Heidelberg, Germany.
Nucleic Acids Research
|November 30, 2012
Summary
The GenomeRNAi database now offers enhanced RNA interference (RNAi) data for human and Drosophila, improving gene function studies. This update features a redesigned interface, downloadable data, and improved integration with other biological resources.
Area of Science:
- * Genomics
- * Molecular Biology
- * Bioinformatics
Background:
- * RNA interference (RNAi) is crucial for large-scale loss-of-function studies to determine gene function.
- * The GenomeRNAi database compiles RNAi phenotype and reagent data from scientific literature for human and Drosophila.
- * Previous versions of the database have been published in the NAR Database Issue.
Purpose of the Study:
- * To describe the significant update of the GenomeRNAi database.
- * To introduce a redesigned user interface for improved usability and functionality.
- * To enhance data accessibility and integration with external resources.
Main Methods:
- * Re-design of the user interface for intuitive navigation and flexibility.
- * Implementation of data download for screen information and gene-reagent-phenotype associations.
- * Integration with external resources via GenomeRNAi screen IDs and gene/reagent identifiers.
- * Development of a Distributed Annotation System (DAS) server for genome browser visualization.
- * Addition of a 'frequent hitters' page to highlight consistently phenotyped genes.
- * Establishment of structured annotation guidelines and a data submission template.
Main Results:
- * A completely re-designed, user-friendly interface for the GenomeRNAi database.
- * Availability of downloadable screen information and gene-reagent-phenotype associations.
- * Improved interoperability with other biological databases and resources.
- * Enhanced visualization of RNAi phenotypes and reagents within genome browsers.
- * Identification of 'frequent hitter' genes across multiple screens.
- * Standardized curation through new annotation guidelines and a submission template.
Conclusions:
- * The updated GenomeRNAi database provides a more robust and accessible platform for RNAi research.
- * Enhanced data sharing and integration facilitate systematic gene function analysis.
- * New features support ongoing RNAi studies and promote consistent data curation.
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