A
Anne E. Carpenter
Researcher at Broad Institute
Publications - 222
Citations - 26726
Anne E. Carpenter is an academic researcher from Broad Institute. The author has contributed to research in topics: Medicine & Deep learning. The author has an hindex of 64, co-authored 194 publications receiving 20946 citations. Previous affiliations of Anne E. Carpenter include University of Illinois at Chicago & University of Illinois at Urbana–Champaign.
Papers
More filters
Journal ArticleDOI
CellProfiler: image analysis software for identifying and quantifying cell phenotypes
Anne E. Carpenter,Thouis R. Jones,Michael R. Lamprecht,Colin Clarke,In Han Kang,Ola Friman,David A. Guertin,Joo Han Chang,Robert A. Lindquist,Jason Moffat,Polina Golland,David M. Sabatini +11 more
TL;DR: The first free, open-source system designed for flexible, high-throughput cell image analysis, CellProfiler is described, which can address a variety of biological questions quantitatively.
Journal ArticleDOI
A Lentiviral RNAi Library for Human and Mouse Genes Applied to an Arrayed Viral High-Content Screen
Jason Moffat,Dorre A. Grueneberg,Xiaoping Yang,So Young Kim,So Young Kim,Angela M. Kloepfer,Gregory Hinkle,Gregory Hinkle,Bruno Piqani,Thomas Eisenhaure,Biao Luo,Jennifer K. Grenier,Anne E. Carpenter,Shi Yin Foo,Sheila A. Stewart,Brent R. Stockwell,Nir Hacohen,Nir Hacohen,William C. Hahn,William C. Hahn,Eric S. Lander,David M. Sabatini,David M. Sabatini,David E. Root +23 more
TL;DR: A screen based on high-content imaging was developed to identify genes required for mitotic progression in human cancer cells and applied to an arrayed set of 5,000 unique shRNA-expressing lentiviruses that target 1,028 human genes, providing a widely applicable resource for loss-of-function screens.
Journal ArticleDOI
Opportunities and obstacles for deep learning in biology and medicine.
Travers Ching,Daniel Himmelstein,Brett K. Beaulieu-Jones,Alexandr A. Kalinin,Brian T. Do,Gregory P. Way,Enrico Ferrero,Paul-Michael Agapow,Michael Zietz,Michael M. Hoffman,Michael M. Hoffman,Wei Xie,Gail L. Rosen,Benjamin J. Lengerich,Johnny Israeli,Jack Lanchantin,Stephen Woloszynek,Anne E. Carpenter,Avanti Shrikumar,Jinbo Xu,Evan M. Cofer,Evan M. Cofer,Christopher A. Lavender,Srinivas C. Turaga,Amr Alexandari,Zhiyong Lu,David J. Harris,Dave DeCaprio,Yanjun Qi,Anshul Kundaje,Yifan Peng,Laura K. Wiley,Marwin H. S. Segler,Simina M. Boca,S. Joshua Swamidass,Austin Huang,Anthony Gitter,Anthony Gitter,Casey S. Greene +38 more
TL;DR: It is found that deep learning has yet to revolutionize biomedicine or definitively resolve any of the most pressing challenges in the field, but promising advances have been made on the prior state of the art.
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.
Journal ArticleDOI
mTOR complex 1 regulates lipin 1 localization to control the SREBP pathway.
Timothy R. Peterson,Shomit Sengupta,Thurl E. Harris,Anne E. Carmack,Seong A. Kang,Eric Balderas,David A. Guertin,Katherine L. Madden,Anne E. Carpenter,Brian N. Finck,David M. Sabatini +10 more
TL;DR: It is demonstrated that mTORC1 regulates SREBP by controlling the nuclear entry of lipin 1, a phosphatidic acid phosphatase, which is a key component of the m TORC1-SREBP pathway.