Cargando…

Analysis of cell-based RNAi screens

RNA interference (RNAi) screening is a powerful technology for functional characterization of biological pathways. Interpretation of RNAi screens requires computational and statistical analysis techniques. We describe a method that integrates all steps to generate a scored phenotype list from raw da...

Descripción completa

Detalles Bibliográficos
Autores principales:	Boutros, Michael, Brás, Lígia P, Huber, Wolfgang
Formato:	Texto
Lenguaje:	English
Publicado:	BioMed Central 2006
Materias:	Software
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1779553/ https://www.ncbi.nlm.nih.gov/pubmed/16869968 http://dx.doi.org/10.1186/gb-2006-7-7-r66

Ejemplares similares

ScreenSifter: analysis and visualization of RNAi screening data
por: Kumar, Pankaj, et al.
Publicado: (2013)

web cellHTS2: A web-application for the analysis of high-throughput screening data
por: Pelz, Oliver, et al.
Publicado: (2010)

Design and evaluation of genome-wide libraries for RNA interference screens
por: Horn, Thomas, et al.
Publicado: (2010)

Online GESS: prediction of miRNA-like off-target effects in large-scale RNAi screen data by seed region analysis
por: Yilmazel, Bahar, et al.
Publicado: (2014)

RNA Interference (RNAi) Screening in Drosophila
por: Heigwer, Florian, et al.
Publicado: (2018)

GenomeRNAi: a database for cell-based RNAi phenotypes
por: Horn, Thomas, et al.
Publicado: (2007)

FlyRNAi: the Drosophila RNAi screening center database
por: Flockhart, Ian, et al.
Publicado: (2006)

GenomeRNAi: a database for cell-based RNAi phenotypes. 2009 update
por: Gilsdorf, Moritz, et al.
Publicado: (2010)

Identification of JAK/STAT pathway regulators—Insights from RNAi screens
por: Müller, Patrick, et al.
Publicado: (2008)

Extracting quantitative genetic interaction phenotypes from matrix combinatorial RNAi
por: Axelsson, Elin, et al.
Publicado: (2011)

GenomeRNAi: a database for cell-based and in vivo RNAi phenotypes, 2013 update
por: Schmidt, Esther E., et al.
Publicado: (2013)

CellProfiler Analyst: data exploration and analysis software for complex image-based screens
por: Jones, Thouis R, et al.
Publicado: (2008)

Functional fingerprinting of human mesenchymal stem cells using high-throughput RNAi screening
por: Erdmann, Gerrit, et al.
Publicado: (2015)

ScreenGarden: a shinyR application for fast and easy analysis of plate-based high-throughput screens
por: Klemm, Cinzia, et al.
Publicado: (2022)

E-RNAi: a web application to design optimized RNAi constructs
por: Arziman, Zeynep, et al.
Publicado: (2005)

Software LS-MIDA for efficient mass isotopomer distribution analysis in metabolic modelling
por: Ahmed, Zeeshan, et al.
Publicado: (2013)

Standardized high-throughput evaluation of cell-based compound screens
por: Frommolt, Peter, et al.
Publicado: (2008)

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R
por: Chen, Hanbo, et al.
Publicado: (2011)

Log::ProgramInfo: A Perl module to collect and log data for bioinformatics pipelines
por: Macdonald, John M., et al.
Publicado: (2016)

E-RNAi: a web application for the multi-species design of RNAi reagents—2010 update
por: Horn, Thomas, et al.
Publicado: (2010)

BAMQL: a query language for extracting reads from BAM files
por: Masella, Andre P., et al.
Publicado: (2016)

Ringo – an R/Bioconductor package for analyzing ChIP-chip readouts
por: Toedling, Joern, et al.
Publicado: (2007)

CRISPR library designer (CLD): software for multispecies design of single guide RNA libraries
por: Heigwer, Florian, et al.
Publicado: (2016)

Clustering phenotype populations by genome-wide RNAi and multiparametric imaging
por: Fuchs, Florian, et al.
Publicado: (2010)

A Novel Multiplex Cell Viability Assay for High-Throughput RNAi Screening
por: Gilbert, Daniel F., et al.
Publicado: (2011)

VSFlow: an open-source ligand-based virtual screening tool
por: Jung, Sascha, et al.
Publicado: (2023)

GPURFSCREEN: a GPU based virtual screening tool using random forest classifier
por: Jayaraj, P. B., et al.
Publicado: (2016)

ScreenMill: A freely available software suite for growth measurement, analysis and visualization of high-throughput screen data
por: Dittmar, John C, et al.
Publicado: (2010)

ENCoRE: an efficient software for CRISPR screens identifies new players in extrinsic apoptosis
por: Trümbach, Dietrich, et al.
Publicado: (2017)

A bedr way of genomic interval processing
por: Haider, Syed, et al.
Publicado: (2016)

Development and first application of an audit system for screening programs based on the PRECEDE-PROCEED model: an experience with breast cancer screening in the region of Lombardy (Italy)
por: Cereda, Danilo, et al.
Publicado: (2020)

patRoon: open source software platform for environmental mass spectrometry based non-target screening
por: Helmus, Rick, et al.
Publicado: (2021)

A graph-based approach to construct target-focused libraries for virtual screening
por: Naderi, Misagh, et al.
Publicado: (2016)

Ligand-based virtual screening interface between PyMOL and LiSiCA
por: Dilip, Athira, et al.
Publicado: (2016)

VISPR-online: a web-based interactive tool to visualize CRISPR screening experiments
por: Cui, Yingbo, et al.
Publicado: (2021)

Identification of ER Proteins Involved in the Functional Organisation of the Early Secretory Pathway in Drosophila Cells by a Targeted RNAi Screen
por: Kondylis, Vangelis, et al.
Publicado: (2011)

Plant Screen Mobile: an open-source mobile device app for plant trait analysis
por: Müller-Linow, Mark, et al.
Publicado: (2019)

TableButler – a Windows based tool for processing large data tables generated with high-throughput methods
por: Schwager, Christian, et al.
Publicado: (2009)

mycelyso – high-throughput analysis of Streptomyces mycelium live cell imaging data
por: Sachs, Christian Carsten, et al.
Publicado: (2019)

ISOpureR: an R implementation of a computational purification algorithm of mixed tumour profiles
por: Anghel, Catalina V, et al.
Publicado: (2015)

Cannot write session to /tmp/vufind_sessions/sess_3da0bafoo42nd9run3jqtig1hr