ArticleNucleic acids research2008
Hit selection with false discovery rate control in genome-scale RNAi screens.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
16 citing papers in PubMed.
- Article
- Cell division cycle 7 kinase is a negative regulator of cell-mediated collagen degradation.American journal of physiology. Lung cellular and molecular physiology · 2018Article
- Bayesian Multi-Plate High-Throughput Screening of Compounds.Scientific reports · 2018Article
- High content, high-throughput screening for small molecule inducers of NF-κB translocation.PloS one · 2018Article
- Comprehensive analysis of high-throughput screens with HiTSeekR.Nucleic acids research · 2016Article
- A genome-wide RNAi screening method to discover novel genes involved in virus infection.Methods (San Diego, Calif.) · 2015Article
- Antiviral Stratagems Against HIV-1 Using RNA Interference (RNAi) Technology.Evolutionary bioinformatics online · 2013Article
- Analysis of high-throughput screening assays using cluster enrichment.Statistics in medicine · 2012Article
- Lats2 kinase potentiates Snail1 activity by promoting nuclear retention upon phosphorylation.The EMBO journal · 2012Article
- Noise reduction in genome-wide perturbation screens using linear mixed-effect models.Bioinformatics (Oxford, England) · 2011Article
- Whole genome siRNA cell-based screen links mitochondria to Akt signaling network through uncoupling of electron transport chain.Molecular biology of the cell · 2011Article
- Inhibition of calcineurin-mediated endocytosis and alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors prevents amyloid beta oligomer-induced synaptic disruption.The Journal of biological chemistry · 2010Article
- Automated microscopy for high-content RNAi screening.The Journal of cell biology · 2010Review
- Genomic screening with RNAi: results and challenges.Annual review of biochemistry · 2010Review
- Statistical methods for analysis of high-throughput RNA interference screens.Nature methods · 2009Review
- A network-based integrative approach to prioritize reliable hits from multiple genome-wide RNAi screens in Drosophila.BMC genomics · 2009Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
14 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
RNA interference (RNAi) is a modality in which small double-stranded RNA molecules (siRNAs) designed to lead to the degradation of specific mRNAs are introduced into cells or organisms. siRNA libraries have been developed in which siRNAs targeting virtually every gene in the human genome are designed, synthesized and are presented for introduction into cells by transfection in a microtiter plate array. These siRNAs can then be transfected into cells using high-throughput screening (HTS) methodologies. The goal of RNAi HTS is to identify a set of siRNAs that inhibit or activate defined cellular phenotypes. The commonly used analysis methods including median +/- kMAD have issues about error rates in multiple hypothesis testing and plate-wise versus experiment-wise analysis. We propose a methodology based on a Bayesian framework to address these issues. Our approach allows for sharing of information across plates in a plate-wise analysis, which obviates the need for choosing either a plate-wise or experimental-wise analysis. The proposed approach incorporates information from reliable controls to achieve a higher power and a balance between the contribution from the samples and control wells. Our approach provides false discovery rate (FDR) control to address multiple testing issues and it is robust to outliers.
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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.