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Beth A. Cimini
Researcher at Broad Institute
Publications - 54
Citations - 5101
Beth A. Cimini is an academic researcher from Broad Institute. The author has contributed to research in topics: Computer science & Medicine. The author has an hindex of 8, co-authored 25 publications receiving 3007 citations. Previous affiliations of Beth A. Cimini include University of California, San Francisco & Boston University.
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Journal ArticleDOI
Dynamic Imaging of Genomic Loci in Living Human Cells by an Optimized CRISPR/Cas System
Baohui Chen,Luke A. Gilbert,Beth A. Cimini,Joerg Schnitzbauer,Wei Zhang,Gene-Wei Li,Jason Park,Elizabeth H. Blackburn,Jonathan S. Weissman,Lei S. Qi,Bo Huang +10 more
TL;DR: Using an EGFP-tagged endonuclease-deficient Cas9 protein and a structurally optimized small guide (sg) RNA, robust imaging of repetitive elements in telomeres and coding genes in living cells is demonstrated by repurposing the bacterial CRISPR/Cas system.
Journal ArticleDOI
CellProfiler 3.0: Next-generation image processing for biology.
Claire McQuin,Allen Goodman,Vasiliy S. Chernyshev,Vasiliy S. Chernyshev,Lee Kamentsky,Beth A. Cimini,Kyle W. Karhohs,Minh Doan,Liya Ding,Susanne M. Rafelski,Derek Thirstrup,Winfried Wiegraebe,Shantanu Singh,Tim Becker,Juan C. Caicedo,Anne E. Carpenter +15 more
TL;DR: CellProfiler 3.0 is described, a new version of the software supporting both whole-volume and plane-wise analysis of three-dimensional image stacks, increasingly common in biomedical research.
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Genetic and transcriptional evolution alters cancer cell line drug response
Uri Ben-David,Benjamin A. Siranosian,Gavin Ha,Gavin Ha,Helen Tang,Yaara Oren,Yaara Oren,Kunihiko Hinohara,Kunihiko Hinohara,Craig A. Strathdee,Joshua M. Dempster,Nicholas J. Lyons,Robert Burns,Anwesha Nag,Guillaume Kugener,Beth A. Cimini,Peter Tsvetkov,Yosef E. Maruvka,Ryan O’Rourke,Ryan O’Rourke,Anthony J. Garrity,Andrew A. Tubelli,Pratiti Bandopadhayay,Pratiti Bandopadhayay,Aviad Tsherniak,Francisca Vazquez,Bang Wong,Chet Birger,Mahmoud Ghandi,Aaron R. Thorner,Joshua A. Bittker,Matthew Meyerson,Matthew Meyerson,Gad Getz,Gad Getz,Rameen Beroukhim,Todd R. Golub +36 more
TL;DR: The extent, origins and consequences of genetic variation within human cell lines are studied, providing a framework for researchers to measure such variation in efforts to support maximally reproducible cancer research.
Journal ArticleDOI
Nucleus segmentation across imaging experiments: the 2018 Data Science Bowl.
Juan C. Caicedo,Allen Goodman,Kyle W. Karhohs,Beth A. Cimini,Jeanelle Ackerman,Marzieh Haghighi,CherKeng Heng,Tim Becker,Minh Doan,Claire McQuin,Mohammad Hossein Rohban,Shantanu Singh,Anne E. Carpenter +12 more
TL;DR: The 2018 Data Science Bowl attracted 3,891 teams worldwide to make the first attempt to build a segmentation method that could be applied to any two-dimensional light microscopy image of stained nuclei across experiments, with no human interaction.
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CellProfiler 4: improvements in speed, utility and usability.
David R. Stirling,Madison J. Swain-Bowden,Alice Lucas,Anne E. Carpenter,Beth A. Cimini,Allen Goodman +5 more
TL;DR: The CellProfiler 4 as discussed by the authors is a new version of this software with expanded functionality based on user feedback, and it has made several user interface refinements to improve the usability of the software.