FlyRNAi.org-the database of the Drosophila RNAi screening center and transgenic RNAi project: 2021 update.

Yanhui Hu,Aram Comjean,Norbert Perrimon,Verena Chung,Yue Gao,Yifang Liu,Jonathan Rodiger,Stephanie E Mohr,Jonathan Zirin

doi:10.1093/nar/gkaa936

Abstract

The FlyRNAi database at the Drosophila RNAi Screening Center and Transgenic RNAi Project (DRSC/TRiP) provides a suite of online resources that facilitate functional genomics studies with a special emphasis on Drosophila melanogaster. Currently, the database provides: gene-centric resources that facilitate ortholog mapping and mining of information about orthologs in common genetic model species; reagent-centric resources that help researchers identify RNAi and CRISPR sgRNA reagents or designs; and data-centric resources that facilitate visualization and mining of transcriptomics data, protein modification data, protein interactions, and more. Here, we discuss updated and new features that help biological and biomedical researchers efficiently identify, visualize, analyze, and integrate information and data for Drosophila and other species. Together, these resources facilitate multiple steps in functional genomics workflows, from building gene and reagent lists to management, analysis, and integration of data.

Highlights

Functional genomics, which includes the large-scale application of techniques such as RNA interference (RNAi) and CRISPR-Cas9 approaches, opens the doors to both unbiased and focused assays of gene function
For functional genomics applications more generally, we have developed a portal for RNAi reagent evaluation and retrieval that automatically updates with new gene annotations releases and when public RNAi resources are available [6]; developed a data analysis and visualization tool for high-throughput data analysis that is based on protein complexes [7]; and developed an approach to ortholog identification [8] adopted by other resources, e.g. FlyBase [5]
Major additions in terms of RNAi reagents and data since 2012 include the reagents and data for new focused cell-based RNAi sub-libraries, for example, genes that encode RNAbinding proteins, as well as reagent and validation data for the large number of in vivo fly stocks built by our Transgenic RNAi Project (TRiP) reagent production platform [3], for example, a human disease related collection (HuDis, http://www. flyrnai.org/HuDis-TRiP)

Summary

Introduction

Functional genomics, which includes the large-scale application of techniques such as RNA interference (RNAi) and CRISPR-Cas9 approaches, opens the doors to both unbiased and focused assays of gene function. For functional genomics applications more generally, we have developed a portal for RNAi reagent evaluation and retrieval that automatically updates with new gene annotations releases (fly, worm, human) and when public RNAi resources are available [6]; developed a data analysis and visualization tool for high-throughput data analysis that is based on protein complexes (fly, yeast, human) [7]; and developed an approach to ortholog identification [8] adopted by other resources, e.g. FlyBase [5].

Results

Conclusion