RNAi reagent design

Content tagged with RNAi reagent design

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Important new considerations for TRiP stock users

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A handful of recent papers and preprints have highlighted some important considerations for using TRiP shRNA and sgRNA stocks. First, the Weake lab at Purdue University discovered that TRiP stocks contain a previously uncharacterized loss-of-function...

DRSC/TRiP and DRSC-BTRR Office Hours

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New this fall: Online office hours! Do you have questions about modifying Drosophila cell lines with CRISPR or performing large-scale cell screens? Questions about in vivo RNAi with TRiP fly stocks or CRISPR knockout or activation with our sgRNA fly...

New publications from the DRSC bioinformatics team

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The DRSC bioinformatics team, led by Dr. Claire Yanhui Hu, has recently published two new papers. One reports development of BioLitMine, an advanced literature mining resource. The other provides an overview of our online resources, which can be grouped...

Micropublication relevant to TRiP fly stocks

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Users of TRiP RNAi and sgRNA fly stocks take note: the Weake lab at Purdue University brought to our attention that some TRiP fly stocks carry a mutant allele of seveneless. Jonathan Zirin worked with Spencer Escobedo and Vikki Weake, as well as with...

Now Available: Our 2017 NAR database issue update

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Read about the DRSC/TRiP Functional Genomics Resources online tools and more in our 2017 Nucleic Acids Research database issue update publication. Tables 1 & 2 in particular are meant to give you a quick look at what online tools we offer and how they fit...

Publication describes TRiP resources

News
Liz Perkins and colleagues have published a paper describing the Drosophila Transgenic RNAi Project (TRiP) at Harvard Medical School. The article, published in the November 1, 2015 issue of Genetics, details the TRiP production pipeline , reagents...

Bibliographic References tagged with RNAi reagent design

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Yanhui Hu, Aram Comjean, Jonathan Rodiger, Yifang Liu, Yue Gao, Verena Chung, Jonathan Zirin, Norbert Perrimon, and Stephanie Mohr. 2020. “FlyRNAi.Org-the Database of the Drosophila RNAi Screening Center and Transgenic RNAi Project: 2021 Update”. Nucleic Acids Res. doi:10.1093/nar/gkaa936
Yanhui Hu, Aram Comjean, Jonathan Rodiger, Yifang Liu, Yue Gao, Verena Chung, Jonathan Zirin, Norbert Perrimon, and Stephanie Mohr. 2020. “FlyRNAi.Org-the Database of the Drosophila RNAi Screening Center and Transgenic RNAi Project: 2021 Update”. Nucleic Acids Res. doi:10.1093/nar/gkaa936
Stephanie Mohr, Kirstin Rudd, Yanhui Hu, Wei Song, Quentin Gilly, Michael Buckner, Benjamin Housden, Colleen Kelley, Jonathan Zirin, Rong Tao, Gabriel Amador, Katarzyna Sierzputowska, Aram Comjean, and Norbert Perrimon. 2017. “Zinc Detoxification: A Functional Genomics and Transcriptomics Analysis in Drosophila Melanogaster Cultured Cells”. G3 (Bethesda). doi:10.1534/g3.117.300447
Stephanie Mohr, Kirstin Rudd, Yanhui Hu, Wei Song, Quentin Gilly, Michael Buckner, Benjamin Housden, Colleen Kelley, Jonathan Zirin, Rong Tao, Gabriel Amador, Katarzyna Sierzputowska, Aram Comjean, and Norbert Perrimon. 2017. “Zinc Detoxification: A Functional Genomics and Transcriptomics Analysis in Drosophila Melanogaster Cultured Cells”. G3 (Bethesda). doi:10.1534/g3.117.300447
Chen X and Xu L. 2016. “Genome-Wide RNAi Screening to Dissect the TGF-β Signal Transduction Pathway”. Methods in Molecular Biology
Chen X and Xu L. 2016. “Genome-Wide RNAi Screening to Dissect the TGF-β Signal Transduction Pathway”. Methods in Molecular Biology
Yanhui Hu, Aram Comjean, Charles Roesel, Arunachalam Vinayagam, Ian Flockhart, Jonathan Zirin, Lizabeth Perkins, Norbert Perrimon, and Stephanie Mohr. 2016. “FlyRNAi.Org—the Database of the Drosophila RNAi Screening Center and Transgenic RNAi Project: 2017 Update”. Nucleic Acids Research
Yanhui Hu, Aram Comjean, Charles Roesel, Arunachalam Vinayagam, Ian Flockhart, Jonathan Zirin, Lizabeth Perkins, Norbert Perrimon, and Stephanie Mohr. 2016. “FlyRNAi.Org—the Database of the Drosophila RNAi Screening Center and Transgenic RNAi Project: 2017 Update”. Nucleic Acids Research
Benjamin Housden, Matthias Muhar, Matthew Gemberling, Charles Gersbach, Didier YR Stainier, Geraldine Seydoux, Stephanie Mohr, Johannes Zuber, and Norbert Perrimon. 2016. “Loss-of-Function Genetic Tools for Animal Models: Cross-Species and Cross-Platform Differences”. Nat Rev Genet
Benjamin Housden, Matthias Muhar, Matthew Gemberling, Charles Gersbach, Didier YR Stainier, Geraldine Seydoux, Stephanie Mohr, Johannes Zuber, and Norbert Perrimon. 2016. “Loss-of-Function Genetic Tools for Animal Models: Cross-Species and Cross-Platform Differences”. Nat Rev Genet
Ian Flockhart, Matthew Booker, Yanhui Hu, Benjamin McElvany, Quentin Gilly, Bernard Mathey-Prevot, Norbert Perrimon, and Stephanie Mohr. 2012. “FlyRNAi.Org--the Database of the Drosophila RNAi Screening Center: 2012 Update.”. Nucleic Acids Res, 40, Database issue, Pp. D715-9. doi:10.1093/nar/gkr953
Ian Flockhart, Matthew Booker, Yanhui Hu, Benjamin McElvany, Quentin Gilly, Bernard Mathey-Prevot, Norbert Perrimon, and Stephanie Mohr. 2012. “FlyRNAi.Org--the Database of the Drosophila RNAi Screening Center: 2012 Update.”. Nucleic Acids Res, 40, Database issue, Pp. D715-9. doi:10.1093/nar/gkr953
2014. “Protein Kinase ShRNA Phosphoproteomics Data from D. Melanogaster Embryos (data Portal for Sopko et Al. ‘Combining Genetic Perturbations and Proteomics to Examine Kinase-Phosphatase Networks in Drosophila Embryos’ in Dev Cell)”
2014. “Protein Kinase ShRNA Phosphoproteomics Data from D. Melanogaster Embryos (data Portal for Sopko et Al. ‘Combining Genetic Perturbations and Proteomics to Examine Kinase-Phosphatase Networks in Drosophila Embryos’ in Dev Cell)”
Nadire Ramadan, Ian Flockhart, Matthew Booker, Norbert Perrimon, and Bernard Mathey-Prevot. 2007. “Design and Implementation of High-Throughput RNAi Screens in Cultured Drosophila Cells.”. Nat Protoc, 2, 9, Pp. 2245-64. doi:10.1038/nprot.2007.250
Nadire Ramadan, Ian Flockhart, Matthew Booker, Norbert Perrimon, and Bernard Mathey-Prevot. 2007. “Design and Implementation of High-Throughput RNAi Screens in Cultured Drosophila Cells.”. Nat Protoc, 2, 9, Pp. 2245-64. doi:10.1038/nprot.2007.250
Jian-Quan Ni, Michele Markstein, Richard Binari, Barret Pfeiffer, Lu-Ping Liu, Christians Villalta, Matthew Booker, Lizabeth Perkins, and Norbert Perrimon. 2008. “Vector and Parameters for Targeted Transgenic RNA Interference in Drosophila Melanogaster.”. Nat Methods, 5, 1, Pp. 49-51. doi:10.1038/nmeth1146
Jian-Quan Ni, Michele Markstein, Richard Binari, Barret Pfeiffer, Lu-Ping Liu, Christians Villalta, Matthew Booker, Lizabeth Perkins, and Norbert Perrimon. 2008. “Vector and Parameters for Targeted Transgenic RNA Interference in Drosophila Melanogaster.”. Nat Methods, 5, 1, Pp. 49-51. doi:10.1038/nmeth1146
Stephanie Mohr, Chris Bakal, and Norbert Perrimon. 2010. “Genomic Screening With RNAi: Results and Challenges.”. Annu Rev Biochem, 79, Pp. 37-64. doi:10.1146/annurev-biochem-060408-092949
Stephanie Mohr, Chris Bakal, and Norbert Perrimon. 2010. “Genomic Screening With RNAi: Results and Challenges.”. Annu Rev Biochem, 79, Pp. 37-64. doi:10.1146/annurev-biochem-060408-092949