Data-analysis strategies for image-based cell profiling

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Caicedo , J C , Cooper , S , Heigwer , F , Warchal , S , Qiu , P , Molnar , C , Vasilevich , A S , Barry , J D , Bansal , H S , Kraus , O , Wawer , M , Paavolainen , L , Herrmann , M D , Rohban , M , Hung , J , Hennig , H , Concannon , J , Smith , I , Clemons , P A , Singh , S , Rees , P , Horvath , P , Linington , R G & Carpenter , A E 2017 , ' Data-analysis strategies for image-based cell profiling ' , Nature methods , vol. 14 , no. 9 , pp. 849-863 . https://doi.org/10.1038/NMETH.4397

Title: Data-analysis strategies for image-based cell profiling
Author: Caicedo, Juan C.; Cooper, Sam; Heigwer, Florian; Warchal, Scott; Qiu, Peng; Molnar, Csaba; Vasilevich, Aliaksei S.; Barry, Joseph D.; Bansal, Harmanjit Singh; Kraus, Oren; Wawer, Mathias; Paavolainen, Lassi; Herrmann, Markus D.; Rohban, Mohammad; Hung, Jane; Hennig, Holger; Concannon, John; Smith, Ian; Clemons, Paul A.; Singh, Shantanu; Rees, Paul; Horvath, Peter; Linington, Roger G.; Carpenter, Anne E.
Contributor: University of Helsinki, Institute for Molecular Medicine Finland
University of Helsinki, Institute for Molecular Medicine Finland
Date: 2017-09
Language: eng
Number of pages: 15
Belongs to series: Nature methods
ISSN: 1548-7091
URI: http://hdl.handle.net/10138/224307
Abstract: Image-based cell profiling is a high-throughput strategy for the quantification of phenotypic differences among a variety of cell populations. It paves the way to studying biological systems on a large scale by using chemical and genetic perturbations. The general workflow for this technology involves image acquisition with high-throughput microscopy systems and subsequent image processing and analysis. Here, we introduce the steps required to create high-quality image-based (i.e., morphological) profiles from a collection of microscopy images. We recommend techniques that have proven useful in each stage of the data analysis process, on the basis of the experience of 20 laboratories worldwide that are refining their image-based cell-profiling methodologies in pursuit of biological discovery. The recommended techniques cover alternatives that may suit various biological goals, experimental designs, and laboratories' preferences.
Subject: HIGH-THROUGHPUT MICROSCOPY
HIGH-CONTENT SCREENS
DRUG RESPONSES
ILLUMINATION-CORRECTION
NORMALIZATION METHODS
GENETIC INTERACTIONS
STATISTICAL-METHODS
FUNCTIONAL-ANALYSIS
SOFTWARE TOOLS
ASSAY QUALITY
3111 Biomedicine
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