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Anne E. Carpenter

MIT and Harvard

79H-index
372Paper Count
3.7WCitation Count
Published Papers 124
Publication Date
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Cell Painting for cytotoxicity and mode-of-action analysis in primary human hepatocytes
errCell Systems
IF7.7
err2026-03-27
err0
errOAAI
errJessica D. Ewald; Katherine L. Titterton; Alex Bäuerle; Alex Beatson; Daniil A. Boiko; Ángel A. Cabrera; Jaime Cheah; Beth A. Cimini; Bram L. Gorissen; Joshua Harrill; Thouis R. Jones; Konrad J. Karczewski; Christine E. Crute; David Rouquie; Srijit Seal; Erin Weisbart; Brandon White; Anne E. Carpenter; Shantanu Singh
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errSave
Progress and new challenges in image-based profiling
errMolecular Systems Biology
IF7.7
err2026-03-27
err0
errOAAI
errErik Serrano; John Peters; Jesko Wagner; Rebecca E Graham; Zhenghao Chen; Brian Y Feng; Gisele Miranda; Alexandr A Kalinin; Loan Vulliard; Jenna Tomkinson; Cameron Mattson; Michael J Lippincott; Ziqi Kang; Divya Sitani; Dave Bunten; Srijit Seal; Neil O Carragher; Anne E Carpenter; Shantanu Singh; Paula A Marin Zapata; Juan C Caicedo; Gregory P Way
errShare
errSave
Counting cells can accurately predict small-molecule bioactivity benchmarks
errNature Communications
IF15.7
err2026-02-06
err0
errOAAI
errSrijit Seal; William Dee; Adit Shah; Natacha Cerisier; Andrew Zhang; Esteban Miglietta; Katherine Titterton; Ángel Alexander Cabrera; Daniil Boiko; Alex Beatson; Gregory Slabaugh; Olivier Taboureau; Jordi Carreras Puigvert; Shantanu Singh; Ola Spjuth; Andreas Bender; Anne E. Carpenter
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errSave
nELISA: a high-throughput, high-plex platform enables quantitative profiling of the inflammatory secretome
errNature Methods
IF32.1
err2025-11-07
err0
errOAAI
errMilad Dagher; Grant Ongo; Nathaniel Robichaud; Jinglin Kong; Woojong Rho; Ivan Teahulos; Arya Tavakoli; Samantha Bovaird; Shahem Merjaneh; Andrew Tan; Kiran Edwardson; Christelle Scheepers; Andy Ng; Andy Hajjar; Baly Sow; Michael Vrouvides; Andy Lee; Philippe DeCorwin-Martin; Shafqat Rasool; Jiamin Huang; Timothy Erps; Spencer Coffin; Narges M. Rashidi; Yu Han; Srinivas Niranj Chandrasekaran; Lisa Miller; Maria Kost-Alimova; Adam Skepner; Shantanu Singh; Anne E. Carpenter; Jeffrey D. Munzar; David Juncker
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errSave
Targeting inflammatory adipocytes in metabolic disorders: high-throughput proteomics screen identifies immunomodulatory drug repurposing candidates
errJOURNAL OF IMMUNOLOGY
IF3.4
err2025-11-01
err0
PREAI
errJohnson, Amy; Rosenbloom, Alyssa; Motta, Vinicius; dos Santos, Felipe; Prerez-Schindler, Joaquin; Byrne, Patrick; Alimova, Maria; Stefek, Adam; McGonagle, Elizabeth; Claussnitzer, Melina; Carpenter, Anne; Robichaud, Nathaniel; Dagher, Milad
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errSave
The OASIS Consortium: integrating multi-omics technologies to transform chemical safety assessment
errTOXICOLOGICAL SCIENCES
IF4.1
err2025-10-01
err0
errOAAI
errRouquie, David; Bender, Andreas; Cheah, Jaime; Crute, Christine E.; Dalmas, Deidre; Ewald, Jessica; Fullerton, Aaron; Harrill, Joshua A.; Kadri, Sabah; Kleinstreuer, Nicole; Kramer, Nynke; LaRocca, Jessica; Mitchell, Constance A.; Seal, Srijit; Singh, Shantanu; Carpenter, Anne E.
errShare
errSave
Alternate dyes for image-based profiling assays
errSLAS Discovery
IF2.7
err2025-08-28
err0
errOAAI
errSuganya Sivagurunathan; Patrick Byrne; Alán F. Muñoz; John Arevalo; Anne E. Carpenter; Shantanu Singh; Maria Kost-Alimova; Beth A. Cimini
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errSave
Combining phenomics with transcriptomics reveals cell-type-specific morphological and molecular signatures of the 22q11.2 deletion
errNature Communications
IF15.7
err2025-07-09
err0
errOAAI
errMatthew Tegtmeyer; Dhara Liyanage; Yu Han; Kathryn B. Hebert; Ruifan Pei; Gregory P. Way; Pearl V. Ryder; Derek Hawes; Callum Tromans-Coia; Beth A. Cimini; Anne E. Carpenter; Shantanu Singh; Ralda Nehme
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errSave
Machine Learning for Toxicity Prediction Using Chemical Structures: Pillars for Success in the Real World
errCHEMICAL RESEARCH IN TOXICOLOGY
IF3.8
err2025-05-02
err0
errOAAI
errSeal, Srijit; Mahale, Manas; Garcia-Ortegon, Miguel; Joshi, Chaitanya K.; Hosseini-Gerami, Layla; Beatson, Alex; Greenig, Matthew; Shekhar, Mrinal; Patra, Arijit; Weis, Caroline; Mehrjou, Arash; Badre, Adrien; Paisley, Brianna; Lowe, Rhiannon; Singh, Shantanu; Shah, Falgun; Johannesson, Bjarki; Williams, Dominic; Rouquie, David; Clevert, Djork-Arne; Schwab, Patrick; Richmond, Nicola; Nicolaou, Christos A.; Gonzalez, Raymond J.; Naven, Russell; Schramm, Carolin; Vidler, Lewis R.; Mansouri, Kamel; Walters, W. Patrick; Wilk, Deidre Dalmas; Spjuth, Ola; Carpenter, Anne E.; Bender, Andreas
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errSave
Cell Painting: a decade of discovery and innovation in cellular imaging (Dec, 10.1038/s41592-024-02528-8, 2024)
errNATURE METHODS
IF32.1
err2024-12-12
err0
PREAI
errSeal, Srijit; Trapotsi, Maria-Anna; Spjuth, Ola; Singh, Shantanu; Carreras-Puigvert, Jordi; Greene, Nigel; Bender, Andreas; Carpenter, Anne E.
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errSave
Cell Painting: a decade of discovery and innovation in cellular imaging
errNATURE METHODS
IF32.1
err2024-12-05
err1
PREAI
errSeal, Srijit; Trapotsi, Maria-Anna; Spjuth, Ola; Singh, Shantanu; Carreras-Puigvert, Jordi; Greene, Nigel; Bender, Andreas; Carpenter, Anne E.
errShare
errSave
Cell Painting Gallery: an open resource for image-based profiling
errNATURE METHODS
IF32.1
err2024-09-02
err0
PREAI
errWeisbart, Erin; Kumar, Ankur; Arevalo, John; Carpenter, Anne E.; Cimini, Beth A.; Singh, Shantanu
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errSave
A postdoctoral training program in bioimage analysis
errMOLECULAR BIOLOGY OF THE CELL
IF2.7
err2024-09-01
err2
errOAAI
errCimini, Beth A.; Tromans-Coia, Callum; Stirling, David R.; Sivagurunathan, Suganya; Senft, Rebecca A.; Ryder, Pearl, V; Miglietta, Esteban; Llanos, Paula; Jamali, Nasim; Diaz-Rohrer, Barbara; Dasgupta, Shatavisha; Cruz, Mario; Weisbart, Erin; Carpenter, Anne E.
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errSave
Evaluating batch correction methods for image-based cell profiling
errNATURE COMMUNICATIONS
IF15.7
err2024-08-02
err1
errOAAI
errArevalo, John; Su, Ellen; Ewald, Jessica D.; Van Dijk, Robert; Carpenter, Anne E.; Singh, Shantanu
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errSave
Improved Detection of Drug-Induced Liver Injury by Integrating Predicted In Vivo and In Vitro Data
errCHEMICAL RESEARCH IN TOXICOLOGY
IF3.8
err2024-07-09
err8
errOAAI
errSeal, Srijit; Williams, Dominic; Hosseini-Gerami, Layla; Mahale, Manas; Carpenter, Anne E.; Spjuth, Ola; Bender, Andreas
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errSave
Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations
errNATURE METHODS
IF32.1
err2024-04-09
err10
errOAAI
errChandrasekaran, Srinivas Niranj; Cimini, Beth A.; Goodale, Amy; Miller, Lisa; Kost-Alimova, Maria; Jamali, Nasim; Doench, John G.; Fritchman, Briana; Skepner, Adam; Melanson, Michelle; Kalinin, Alexandr A.; Arevalo, John; Haghighi, Marzieh; Caicedo, Juan C.; Kuhn, Daniel; Hernandez, Desiree; Berstler, James; Shafqat-Abbasi, Hamdah; Root, David E.; Swalley, Susanne E.; Garg, Sakshi; Singh, Shantanu; Carpenter, Anne E.
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errSave
From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability
errMOLECULAR BIOLOGY OF THE CELL
IF2.7
err2024-03-01
err5
errOAAI
errSeal, Srijit; Carreras-Puigvert, Jordi; Singh, Shantanu; Carpenter, Anne E.; Spjuth, Ola; Bender, Andreas
errShare
errSave
Learning representations for image-based profiling of perturbations
errNATURE COMMUNICATIONS
IF15.7
err2024-02-21
err9
errOAAI
errMoshkov, Nikita; Bornholdt, Michael; Benoit, Santiago; Smith, Matthew; Mcquin, Claire; Goodman, Allen; Senft, Rebecca A.; Han, Yu; Babadi, Mehrtash; Horvath, Peter; Cimini, Beth A.; Carpenter, Anne E.; Singh, Shantanu; Caicedo, Juan C.
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errSave
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank
errJOURNAL OF CHEMICAL INFORMATION AND MODELING
IF5.3
err2024-02-01
err8
errOAAI
errSeal, Srijit; Spjuth, Ola; Hosseini-Gerami, Layla; Garcia-Ortegon, Miguel; Singh, Shantanu; Bender, Andreas; Carpenter, Anne E.
errShare
errSave
Bringing computation to biology by bridging the last mile
errNATURE CELL BIOLOGY
IF19.1
err2024-01-16
err2
errOAAI
errCarpenter, Anne E.; Singh, Shantanu
errShare
errSave

Research Directions

No research directions
Co-authors
Cooperation Journals
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David A. Bennett
H-index: 197 · Papers: 2.2K
R
Robert A. Weinberg
H-index: 194 · Papers: 673
T
Todd R. Golub
H-index: 176 · Papers: 749
S
Stuart L. Schreiber
H-index: 166 · Papers: 1.3K
D
David M. Sabatini
H-index: 149 · Papers: 533
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