Publications from the DRSC (including methods, tools, off-target effects):

Neumuller RA, Wirtz-Peitz F, Lee S, Kwon Y, Buckner M, Hoskins RA Hoskins, Venken KJ, Bellen HJ, Mohr SE, Perrimon N. Stringent Analysis of Gene Function and Protein-Protein Interactions Using Fluorescently Tagged Genes. Genetics. 2011 Dec 14. [Epub ahead of print]

Flockhart IT, Booker M, Hu Y, McElvany B, Gilly Q, Mathey-Prevot B, Perrimon N, Mohr SE. FlyRNAi.org--the database of the Drosophila RNAi screening center: 2012 update. Nucleic Acids Res. 2011 Nov 8. [Epub ahead of print]

Mohr SE, Perrimon N. RNAi screening: new approaches, understandings, and organisms. Wiley Interdiscip Rev RNA. 2011 Sep 22. doi: 10.1002/wrna.110. [Epub ahead of print]

Hu Y, Flockhart I, Vinayagam A, Bergwitz C, Berger B, Perrimon N, Mohr SE. An Integrative Approach to Ortholog Prediction for Disease-Focused and Other Functional Studies. BMC Bioinformatics. 2011 Aug 31;12(1):357.

Booker M, Samsonova AA, Kwon Y, Flockhart I, Mohr SE, Perrimon N. False negative rates in Drosophila cell-based RNAi screens: A case study. BMC Genomics 2011, 12:50doi:10.1186/1471-2164-12-50.

Neumüller RA, Perrimon N. Where gene discovery turns into systems biology: genome-scale RNAi screens in Drosophila. Wiley Interdiscip Rev Syst Biol Med. 2010 Dec 31. [Epub ahead of print]

Yan H, Venkatesan K, Beaver JE, Klitgord N, Yildirim MA, Hao T, Hill DE, Cusick ME, Perrimon N, Roth FP, Vidal M. A Genome-Wide Gene Function Prediction Resource for Drosophila melanogaster. PLoS One. 2010 Aug 12;5(8). pii: e12139.

Perrimon N, Ni JQ, Perkins L. In vivo RNAi: Today and Tomorrow. Cold Spring Harb Perspect Biol. 2010 Aug 1;2(8):a003640. Epub 2010 Jun 9.

Mohr S, Bakal C, Perrimon N. Genomic Screening with RNAi: Results and Challenges. Annu Rev Biochem. 2010;79:37-64.

Bai J, Sepp KJ, Perrimon N. Culture of Drosophila primary cells dissociated from gastrula embryos and their use in RNAi screening. Nat Protoc. 2009;4(10):1502-12. Epub 2009 Sep 24.

Kondo S, Booker M, Perrimon N. Cross-species RNAi Rescue Platform in Drosophila melanogaster. Genetics. 2009 Nov;183(3):1165-73. Epub 2009 Aug 31.

Kaplow IM, Singh R, Friedman A, Bakal C, Perrimon N, Berger B. RNAiCut: automated detection of significant genes from functional genomic screens. Nat Methods. 2009 Jul;6(7):476-7.

Ni JQ, Liu LP, Binari R, Hardy R, Shim HS, Cavallaro A, Booker M, Pfeiffer B, Markstein M, Wang H, Villalta C, Laverty T, Perkins L, Perrimon N. A Drosophila Resource of Transgenic RNAi Lines for Neurogenetics. Genetics. 2009; published ahead of print on June 1, 2009 as doi: 10.1534/genetics.109.103630

Wang J, Zhou X, Bradley PL, Chang SF, Perrimon N, Wong ST. Cellular phenotype recognition for high-content RNA interference genome-wide screening. J Biomol Screen. 2008 Feb;13(1):29-39.

Ni JQ, Markstein M, Binari R, Pfeiffer B, Liu LP, Villalta C, Booker M, Perkins L, Perrimon N. Vector and parameters for targeted transgenic RNA interference in Drosophila melanogaster. Nat Methods. 2008 Jan;5(1):49-51.

DasGupta R, Nybakken K, Booker M, Mathey-Prévôt B, Gonsalves F, Changkakoty B,Perrimon N. A case study of the reproducibility of transcriptional reporter cell-based RNAi screens in Drosophila. Genome Biol. 2007;8(9):R203.

Ramadan N, Flockhart I, Booker M, Perrimon N, Mathey-Prévôt B. Design and implementation of high-throughput RNAi screens in cultured Drosophila cells. Nat Protoc. 2007;2(9):2245-64.

Perrimon N, Mathey-Prévôt B. Applications of high-throughput RNA interference screens to problems in cell and developmental biology. Genetics. 2007 Jan;175(1):7-16.

Echeverri CJ, Beachy PA, Baum B, Boutros M, Buchholz F, Chanda SK, Downward J, Ellenberg J, Fraser AG, Hacohen N, Hahn WC, Jackson AL, Kiger A, Linsley PS, Lum L, Ma Y, Mathey-Prévôt B, Root DE, Sabatini DM, Taipale J, Perrimon N, Bernards R. Minimizing the risk of reporting false positives in large-scale RNAi screens. Nat Methods. 2006 Oct;3(10):777-9.

Kulkarni MM, Booker M, Silver SJ, Friedman A, Hong P, Perrimon N, Mathey-Prévôt B. Evidence of off-target effects associated with long dsRNAs in Drosophila melanogaster cell-based assays. Nat Methods. 2006 Oct;3(10):833-8.

Echeverri CJ, Perrimon N. High-throughput RNAi screening in cultured cells: a user's guide. Nat Rev Genet. 2006 May;7(5):373-84.

Flockhart I, Booker M, Kiger A, Boutros M, Armknecht S, Ramadan N, Richardson K, Xu A, Perrimon N, Mathey-Prévôt B. FlyRNAi: the Drosophila RNAi screening center database. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D489-94

Armknecht S, Boutros M, Kiger A, Nybakken K, Mathey-Prévôt B, Perrimon N. High-throughput RNA interference screens in Drosophila tissue culture cells. Methods Enzymol. 2005;392:55-73.