HTS-Net: an integrated regulome-interactome approach for establishing network regulation models in high-throughput screenings

C Rioualen, Q Da Costa, B Chetrit, E Charafe-Jauffret… - PLoS …, 2017 - journals.plos.org
High-throughput RNAi screenings (HTS) allow quantifying the impact of the deletion of each
gene in any particular function, from virus-host interactions to cell differentiation. However …

web cellHTS2: a web-application for the analysis of high-throughput screening data

O Pelz, M Gilsdorf, M Boutros - BMC bioinformatics, 2010 - Springer
Background The analysis of high-throughput screening data sets is an expanding field in
bioinformatics. High-throughput screens by RNAi generate large primary data sets which …

An integrative approach for a network based meta-analysis of viral RNAi screens

SS Amberkar, L Kaderali - Algorithms for Molecular Biology, 2015 - Springer
Background Big data is becoming ubiquitous in biology, and poses significant challenges in
data analysis and interpretation. RNAi screening has become a workhorse of functional …

A direct look at RNAi screens

AR Barr, C Bakal - Molecular Systems Biology, 2012 - embopress.org
Over the last decade, cell-based RNAi screens have emerged as a powerful research tool.
High-content RNAi screening in particular has been successfully used to systematically …

Genomic screening with RNAi: results and challenges

S Mohr, C Bakal, N Perrimon - Annual review of biochemistry, 2010 - annualreviews.org
RNA interference (RNAi) is an effective tool for genome-scale, high-throughput analysis of
gene function. In the past five years, a number of genome-scale RNAi high-throughput …

Analysis of cell-based RNAi screens

M Boutros, LP Brás, W Huber - Genome biology, 2006 - Springer
RNA interference (RNAi) screening is a powerful technology for functional characterization
of biological pathways. Interpretation of RNAi screens requires computational and statistical …

Knowledge based identification of essential signaling from genome-scale siRNA experiments

A Bankhead, I Sach, C Ni, N LeMeur, M Kruger… - BMC Systems …, 2009 - Springer
Background A systems biology interpretation of genome-scale RNA interference (RNAi)
experiments is complicated by scope, experimental variability and network signaling …

ScreenSifter: analysis and visualization of RNAi screening data

P Kumar, G Goh, S Wongphayak, D Moreau, F Bard - BMC bioinformatics, 2013 - Springer
Background RNAi screening is a powerful method to study the genetics of intracellular
processes in metazoans. Technically, the approach has been largely inspired by techniques …

Morphological profiles of RNAi-induced gene knockdown are highly reproducible but dominated by seed effects

S Singh, X Wu, V Ljosa, MA Bray, F Piccioni, DE Root… - PloS one, 2015 - journals.plos.org
RNA interference and morphological profiling—the measurement of thousands of
phenotypes from individual cells by microscopy and image analysis—are a potentially …

Factors affecting reproducibility between genome-scale siRNA-based screens

NJ Barrows, CL Sommer… - Journal of …, 2010 - journals.sagepub.com
RNA interference-based screening is a powerful new genomic technology that addresses
gene function en masse. To evaluate factors influencing hit list composition and …