OpenHiCAMM: High-Content Screening Software for Complex Microscope Imaging Workflows

Journal Article · 01 April 2018 · iScience

DOI: https://doi.org/10.1016/j.isci.2018.03.017 · OSTI ID:1618151

Booth, Benjamin W. ^[1]; McParland, Charles ^[1]; Beattie, Keith ^[1]; Fisher, William W. ^[1]; Hammonds, Ann S. ^[1]; Celniker, Susan E. ^[1]; Frise, Erwin ^[1]

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1. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

High-content image acquisition is generally limited to cells grown in culture, requiring complex hardware and preset imaging modalities. Here we report an open source software package, OpenHiCAMM (Open Hi Content Acquisition for μManager), that provides a flexible framework for integration of generic microscope-associated robotics and image processing with sequential workflows. As an example, we imaged Drosophila embryos, detecting the embryos at low resolution, followed by re-imaging the detected embryos at high resolution, suitable for computational analysis and screening. The OpenHiCAMM package is easy to use and adapt for automating complex microscope image tasks. It expands our abilities for high-throughput image-based screens to a new range of biological samples, such as organoids, and will provide a foundation for bioimaging systems biology.

• Research Organization: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
• Sponsoring Organization: USDOE Office of Science (SC); National Institutes of Health (NIH); Laboratory of Systems Biology and Genetics (LSBG) of Ecole polytechnique fédérale de Lausanne; USDOE
• Grant/Contract Number: AC02-05CH11231; R01 GM076655; R01 GM097231; DEAC02- 05CH11231
• OSTI ID: 1618151
• Alternate ID(s): OSTI ID: 1623674
• Journal Information: iScience, Vol. 2, Issue C; ISSN 2589-0042
• Publisher: ElsevierCopyright Statement
• Country of Publication: United States
• Language: English