Workflow-based software environment for large-scale biological experiments

Journal of Biomolecular Screening
Karol KozakGabor Csucs

Abstract

High-content screening (HCS) technologies are becoming increasingly used in both large-scale drug discovery and basic research programs. These automated imaging and analysis technologies enable the researcher to elucidate the complex biology that underlies the functions of genes, proteins, and other biomolecules at the cellular level. HCS combines the power of automated digital microscopy and advanced software-based image analysis algorithms to detect and quantify biological changes in cells and tissues. This technology is a particularly powerful tool when used to interrogate the cellular effects of exogenously applied agents such as RNAi and/or small molecules. HCS allows for the evaluation of cellular perturbations that occur both at the level of the single cell and within cellular populations. In a multivariate approach, multiple cellular parameters are collected, allowing for more complex analysis. However, in these scenarios, data flow and management still represent substantial bottlenecks in HCS projects. HCS data include a diversity of information from multiple sources such as details pertaining to screening libraries (e.g., siRNA and small molecules), image stacks acquired from automated microscopes (of which there may ...Continue Reading

References

Jul 12, 2002·Nature·Gregory J Hannon
Jul 28, 2006·Genome Biology·Michael BoutrosWolfgang Huber
Oct 13, 2006·Molecular Diversity·Moises HassanDavid Rogers
Nov 2, 2006·Genome Biology·Anne E CarpenterDavid M Sabatini
Nov 30, 2006·Drug Discovery Today·Nicolas Fay
Aug 1, 2009·Nature Methods·Amanda BirminghamCaroline E Shamu

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Citations

Jul 17, 2012·Journal of Laboratory Automation·Constantin RaduHakim Djaballah
Sep 27, 2012·Viruses·Gianluca PegoraroRekha G Panchal
Nov 28, 2015·Toxicological Sciences : an Official Journal of the Society of Toxicology·Luisana Di CristoEnrico Bergamaschi
Apr 12, 2012·Drug Discovery Today·Neil O CarragherMargaret C Frame
Mar 15, 2016·Expert Opinion on Drug Discovery·Ivan Fraietta, Fabio Gasparri
Jan 12, 2012·Journal of Biomolecular Screening·Frans CornelissenEmmanuel Gustin
Jun 3, 2020·SLAS Discovery·Judith Wardwell-SwansonOlivier Frey

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Software Mentioned

General Atomic and Molecular Electronic Structure System ( GAM...
ChemSense
Project
R
- KNIME
Acapella
HITS
InforSense KDE
CellProfiler
File Reader

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