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Evaluation of Deep Learning Strategies for Nucleus Segmentation in Fluorescence Images

Publication: Journal Article

Caicedo, Juan, Jonathan Roth, Allen Goodman, Tim Becker, Kyle Karhohs, Matthieu Broisin, Csaba Molnar, et al. 2019. “Evaluation of Deep Learning Strategies for Nucleus Segmentation in Fluorescence Images”. Cytometry Part A 95 (9): 952-65.

Baker-Polito Administration and Massachusetts Life Sciences Center announce $6.7 million in grant awards to data-driven life sciences capital projects

News: September 09, 2019

Massachusetts Governor Charlie Baker announced today during remarks at MassBio’s Digital Health Impact Forum in Boston that the Baker-Polito Administration and the Massachusetts Life Sciences Center (MLSC) awarded $6.7 million in capital funding to nine data-driven, cross-sector projects focused on...

JUMP-Cell Painting Consortium

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Coming soon!

Nucleus segmentation across imaging experiments: the 2018 Data Science Bowl

Publication: Journal Article

JC, Caicedo, Goodman A, Karhohs KW, Cimini BA, Ackerman J, Haghighi M, Heng C, et al. 2019. “Nucleus Segmentation across Imaging Experiments: The 2018 Data Science Bowl”. Nature Methods 16 (12): 1247-53.

Applications in image-based profiling of perturbations

Publication: Journal Article

Caicedo, Juan, Shantanu Singh, and Anne Carpenter. 2016. “Applications in Image-Based Profiling of Perturbations”. Current Opinion in Biotechnology 39: 134-42.

Partners

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The consortium was a collaboration between the Carpenter-Singh Lab, the Genetic Perturbation Platform, and the Center for the Development of Therapeutics at the Broad Institute of MIT and Harvard along with industry and non-profit partners that were committed to creating a public Cell Painting...

About the lab

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Data-analysis strategies for image-based cell profiling

Publication: Journal Article

Caicedo, Juan, Sam Cooper, Florian Heigwer, Scott Warchal, Peng Qiu, Csaba Molnar, Aliaksei Vasilevich, et al. 2017. “Data-Analysis Strategies for Image-Based Cell Profiling”. Nature Methods 14 (9): 849-63.

Cell Painting

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The Carpenter lab and Schreiber lab at the Broad Institute of MIT and Harvard developed Cell Painting, a microscopy assay that generates images that reflect cell response to treatments such as drug or genetic perturbations, in high-throughput (at a scale of 100,000+ perturbations). The Carpenter lab...

Kevin Eliceiri named Fellow of the Optical Society of America

News: October 01, 2020

COBA's own Dr. Kevin Eliceiri has been named a 2021 Fellow of the Optical Society of America for outstanding research in cellular microenvironment imaging and bio-image informatics. According to the OSA: This distinction was awarded to 118 OSA members, from 24 countries, for their significant...