ArticleGenetics2013
UP-TORR: online tool for accurate and Up-to-Date annotation of RNAi Reagents.
Article in Genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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Who cites it
42 citing papers in PubMed.
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- Investigating oncoprotein-mediated chromatin dysregulation inbioRxiv : the preprint server for biology · 2025Article
- A deficiency screen of the X chromosome for Rap1 GTPase dominant interacting genes in Drosophila border cell migration.G3 (Bethesda, Md.) · 2025Article
- FlyRNAi.org 2025 update-expanded resources for new technologies and species.Nucleic acids research · 2025Article
- Secretion of endoplasmic reticulum protein VAPB/ALS8 requires topological inversion.Nature communications · 2024Article
- The NFκB Dif is required for behavioral and molecular correlates of sleep homeostasis in Drosophila.Sleep · 2024Article
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- The NFκBbioRxiv : the preprint server for biology · 2023Article
- Adult expression of Semaphorins and Plexins is essential for motor neuron survival.Scientific reports · 2023Article
- Local Microtubule and F-Actin Distributions Fully Constrain the Spatial Geometry ofInternational journal of molecular sciences · 2023Article
- The Zinc-BED Transcription Factor Bedwarfed Promotes Proportional Dendritic Growth and Branching through Transcriptional and Translational Regulation inInternational journal of molecular sciences · 2023Article
- Systematic identification and characterization of repressive domains in Drosophila transcription factors.The EMBO journal · 2023Article
- Chloride-dependent mechanisms of multimodal sensory discrimination and nociceptive sensitization ineLife · 2023Article
- Cell-specific occupancy dynamics between the pioneer-like factor Opa/ZIC and Ocelliless/OTX regulate early head development in embryos.Frontiers in cell and developmental biology · 2023Article
- Expression ofCells · 2021Article
- FlyRNAi.org-the database of the Drosophila RNAi screening center and transgenic RNAi project: 2021 update.Nucleic acids research · 2021Article
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- Sec71 separates Golgi stacks inJournal of cell science · 2020Article
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6 authors.
Funding
Abstract
RNA interference (RNAi) is a widely adopted tool for loss-of-function studies but RNAi results only have biological relevance if the reagents are appropriately mapped to genes. Several groups have designed and generated RNAi reagent libraries for studies in cells or in vivo for Drosophila and other species. At first glance, matching RNAi reagents to genes appears to be a simple problem, as each reagent is typically designed to target a single gene. In practice, however, the reagent-gene relationship is complex. Although the sequences of oligonucleotides used to generate most types of RNAi reagents are static, the reference genome and gene annotations are regularly updated. Thus, at the time a researcher chooses an RNAi reagent or analyzes RNAi data, the most current interpretation of the RNAi reagent-gene relationship, as well as related information regarding specificity (e.g., predicted off-target effects), can be different from the original interpretation. Here, we describe a set of strategies and an accompanying online tool, UP-TORR (for Updated Targets of RNAi Reagents; www.flyrnai.org/up-torr), useful for accurate and up-to-date annotation of cell-based and in vivo RNAi reagents. Importantly, UP-TORR automatically synchronizes with gene annotations daily, retrieving the most current information available, and for Drosophila, also synchronizes with the major reagent collections. Thus, UP-TORR allows users to choose the most appropriate RNAi reagents at the onset of a study, as well as to perform the most appropriate analyses of results of RNAi-based studies.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.