An image analysis toolbox for high-throughput C. elegans assays

Carolina Wählby; Lee Kamentsky; Zihan H. Liu; Tammy Riklin-Raviv; Annie L. Conery; Eyleen J. O'Rourke; Katherine L. Sokolnicki; Orane Visvikis; Vebjorn Ljosa; Javier E. Irazoqui; Polina Golland; Gary Ruvkun; Frederick M. Ausubel; Anne E. Carpenter

doi:10.1038/nmeth.1984

An image analysis toolbox for high-throughput C. elegans assays

Carolina Wählby, Lee Kamentsky, Zihan H. Liu, Tammy Riklin-Raviv, Annie L. Conery, Eyleen J. O'Rourke, Katherine L. Sokolnicki, Orane Visvikis, Vebjorn Ljosa, Javier E. Irazoqui, Polina Golland, Gary Ruvkun, Frederick M. Ausubel, Anne E. Carpenter

Research output: Contribution to journal › Article › peer-review

Abstract

We present a toolbox for high-throughput screening of image-based Caenorhabditis elegans phenotypes. The image analysis algorithms measure morphological phenotypes in individual worms and are effective for a variety of assays and imaging systems. This WormToolbox is available through the open-source CellProfiler project and enables objective scoring of whole-worm high-throughput image-based assays of C. elegans for the study of diverse biological pathways that are relevant to human disease.

Original language	American English
Pages (from-to)	714-716
Number of pages	3
Journal	Nature Methods
Volume	9
Issue number	7
DOIs	https://doi.org/10.1038/nmeth.1984
State	Published - 1 Jul 2012
Externally published	Yes

All Science Journal Classification (ASJC) codes

Biotechnology
Biochemistry
Molecular Biology
Cell Biology

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10.1038/nmeth.1984

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title = "An image analysis toolbox for high-throughput C. elegans assays",

abstract = "We present a toolbox for high-throughput screening of image-based Caenorhabditis elegans phenotypes. The image analysis algorithms measure morphological phenotypes in individual worms and are effective for a variety of assays and imaging systems. This WormToolbox is available through the open-source CellProfiler project and enables objective scoring of whole-worm high-throughput image-based assays of C. elegans for the study of diverse biological pathways that are relevant to human disease.",

author = "Carolina W{\"a}hlby and Lee Kamentsky and Liu, \{Zihan H.\} and Tammy Riklin-Raviv and Conery, \{Annie L.\} and O'Rourke, \{Eyleen J.\} and Sokolnicki, \{Katherine L.\} and Orane Visvikis and Vebjorn Ljosa and Irazoqui, \{Javier E.\} and Polina Golland and Gary Ruvkun and Ausubel, \{Frederick M.\} and Carpenter, \{Anne E.\}",

note = "Funding Information: Funding for this work was provided by the US National Institutes of Health to C.W. (R01 GM095672), A.E.C. (R01 GM089652), F.M.A. (R01 AI072508, P01 AI083214 and R01 AI085581), E.J.O. (K99DK087928) and P.G. (U54 EB005149). The Broad Institute SPARC (Scientific Planning and Allocation of Resources Committee) program also funded this work. The authors thank S.C. Pak and G.A. Silverman (University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, USA) for the images of assay 1, J. Larkins-Ford and P. Lim for technical assistance and members of the Imaging Platform and the international C. elegans community for scientific guidance and helpful comments.",

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doi = "10.1038/nmeth.1984",

language = "American English",

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journal = "Nature Methods",

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AU - Wählby, Carolina

AU - Kamentsky, Lee

AU - Liu, Zihan H.

AU - Riklin-Raviv, Tammy

AU - Conery, Annie L.

AU - O'Rourke, Eyleen J.

AU - Sokolnicki, Katherine L.

AU - Visvikis, Orane

AU - Ljosa, Vebjorn

AU - Irazoqui, Javier E.

AU - Golland, Polina

AU - Ruvkun, Gary

AU - Ausubel, Frederick M.

AU - Carpenter, Anne E.

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An image analysis toolbox for high-throughput C. elegans assays

Abstract

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