Funding in the first two cycles of this grant provided support of the Drosophila RNAi Screening Center (DRSC) at Harvard Medical School, allowing us to bring to the community a unique state-of-the art infrastructure for high-throughput RNAi screens (RNAi-HTS) in Drosophila cells. To date, we have facilitated more than 100 full- genome and smaller screens, resulting already in 72 publications on screen results, methods, meta-analysis, etc. DRSC datasets are available for search or download online at our own website, www.flyrnai.org, as well as at other sites such as FLIGHT, GenomeRNAi, FlyMine and most recently, NCBI PubChem BioAssays. Importantly, over the years we have designed, generated, and refined our libraries of double-stranded RNAs (dsRNAs). Our libraries offer exceptional quality and coverage, currently comprising a total of nearly 33,000 unique, high-quality RNAi reagents targeting about 13,500 protein-coding and 400 non-coding Drosophila genes. We also designed and maintain an extensive laboratory information management system (LIMS) and database to track reagents, results, gene information, and more, as well as a website that provides free access to protocols, publications, datasets, software tools, and more. Altogether, we have succeeded in establishing ourselves as an integrated center for screening and technology transfer, serving the widest possible community of researchers. Through support of both on-site and off-site screening using our high-quality libraries, researchers have and are continuing to conduct innovative cell-based assays interrogating diverse functions, such as cell growth, division and death, host-pathogen interactions, signal transduction, cell and organelle size and morphology, and much more. The experience we gained over the past eight years has shaped our view of how to further expand the scope and impact of the DRSC through continued support of on- site and off-site screening as well as rapid transfer of new technologies to the community. In this competing renewal, we seek continued support for the DRSC to keep providing a state-of-the art infrastructure and reagents for functional genomic screening by the widest possible group of researchers. Our effort is critical as, unlike for RNAi screening in mammalian cells, commercial companies have no commitment to provide the community with reagents for Drosophila RNAi screens.

Public Health Relevance

This project aims to seek continued support for the Drosophila RNAi Screening Center (DRSC) at Harvard Medical School. We will continue to provide the community with state-of-the-art reagents and infrastructure for functional genomic screening in Drosophila cells. Moreover, we will continue to serve as a 'technology transfer center'by making protocols, reagents, equipment, software, etc. rapidly available to the community at large.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
2R01GM067761-09A1
Application #
8233861
Study Section
Genomics, Computational Biology and Technology Study Section (GCAT)
Program Officer
Reddy, Michael K
Project Start
2003-05-01
Project End
2015-11-30
Budget Start
2012-01-01
Budget End
2012-11-30
Support Year
9
Fiscal Year
2012
Total Cost
$800,259
Indirect Cost
$326,733
Name
Harvard University
Department
Genetics
Type
Schools of Medicine
DUNS #
047006379
City
Boston
State
MA
Country
United States
Zip Code
02115
Mohr, Stephanie E (2014) RNAi screening in Drosophila cells and in vivo. Methods 68:82-8
Sopko, Richelle; Foos, Marianna; Vinayagam, Arunachalam et al. (2014) Combining genetic perturbations and proteomics to examine kinase-phosphatase networks in Drosophila embryos. Dev Cell 31:114-27
Yilmazel, Bahar; Hu, Yanhui; Sigoillot, Frederic et al. (2014) Online GESS: prediction of miRNA-like off-target effects in large-scale RNAi screen data by seed region analysis. BMC Bioinformatics 15:192
Mohr, Stephanie E; Hu, Yanhui; Kim, Kevin et al. (2014) Resources for functional genomics studies in Drosophila melanogaster. Genetics 197:1-18
Yan, Dong; Neumüller, Ralph A; Buckner, Michael et al. (2014) A regulatory network of Drosophila germline stem cell self-renewal. Dev Cell 28:459-73
Vinayagam, Arunachalam; Zirin, Jonathan; Roesel, Charles et al. (2014) Integrating protein-protein interaction networks with phenotypes reveals signs of interactions. Nat Methods 11:94-9
Mohr, Stephanie E; Smith, Jennifer A; Shamu, Caroline E et al. (2014) RNAi screening comes of age: improved techniques and complementary approaches. Nat Rev Mol Cell Biol 15:591-600
Silva-Ayala, Daniela; Lopez, Tomas; Gutierrez, Michelle et al. (2013) Genome-wide RNAi screen reveals a role for the ESCRT complex in rotavirus cell entry. Proc Natl Acad Sci U S A 110:10270-5
Miao, Yong; Miner, Cathrine; Zhang, Lei et al. (2013) An essential and NSF independent role for ?-SNAP in store-operated calcium entry. Elife 2:e00802
Neumuller, Ralph A; Gross, Thomas; Samsonova, Anastasia A et al. (2013) Conserved regulators of nucleolar size revealed by global phenotypic analyses. Sci Signal 6:ra70

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