Anne E Carpenter (Anne Carpenter, A E Carpenter)

ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 125

Top Venues

bioRxiv : the preprint server for biology

Nature communications

eLife

Nature methods

This page only lists publications with an associated author ORCID identifier.

Publications

Anne E Carpenter, Shantanu Singh
Bringing computation to biology by bridging the last mile. Nature cell biology 26 (1) (2024)
Srijit Seal, Maria-Anna Trapotsi, Ola Spjuth, Shantanu Singh, Jordi Carreras-Puigvert, Nigel Greene, Andreas Bender, Anne E Carpenter
A Decade in a Systematic Review: The Evolution and Impact of Cell Painting. bioRxiv : the preprint server for biology (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Srijit Seal, Dominic Williams, Layla Hosseini-Gerami, Manas Mahale, Anne E Carpenter, Ola Spjuth, Andreas Bender
Improved Detection of Drug-Induced Liver Injury by Integrating Predicted In Vivo and In Vitro Data. Chemical research in toxicology (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Srijit Seal, Dominic Williams, Layla Hosseini-Gerami, Manas Mahale, Anne E Carpenter, Ola Spjuth, Andreas Bender
Improved Detection of Drug-Induced Liver Injury by Integrating Predicted In Vivo and In Vitro Data. Chemical research in toxicology (2024)
Srijit Seal, Dominic Williams, Layla Hosseini-Gerami, Manas Mahale, Anne E Carpenter, Ola Spjuth, Andreas Bender
Improved Detection of Drug-Induced Liver Injury by Integrating Predicted In Vivo and In Vitro Data. Chemical research in toxicology 37 (8) (2024)
Anne E Carpenter, Shantanu Singh
Bringing computation to biology by bridging the last mile. Nature cell biology 26 (1) (2024)
Srijit Seal, Jordi Carreras-Puigvert, Shantanu Singh, Anne E Carpenter, Ola Spjuth, Andreas Bender
From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability. Molecular biology of the cell 35 (3) (2024)
Srijit Seal, Dominic Williams, Layla Hosseini-Gerami, Manas Mahale, Anne E Carpenter, Ola Spjuth, Andreas Bender
Improved Detection of Drug-Induced Liver Injury by Integrating Predicted In Vivo and In Vitro Data. Chemical research in toxicology 37 (8) (2024)
Beth A Cimini, Callum Tromans-Coia, David R Stirling, Suganya Sivagurunathan, Rebecca A Senft, Pearl V Ryder, Esteban A Miglietta, Paula Llanos, Nasim Jamali, Barbara Diaz-Rohrer, Shatavisha Dasgupta, Mario Costa Cruz, Erin Weisbart, Anne E Carpenter
A Postdoctoral Training Program in Bioimage Analysis. bioRxiv : the preprint server for biology (2024)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank. Journal of chemical information and modeling (2024)
Alexandr A Kalinin, John Arevalo, Loan Vulliard, Erik Serrano, Hillary Tsang, Michael Bornholdt, Bartek Rajwa, Anne E Carpenter, Gregory P Way, Shantanu Singh
A versatile information retrieval framework for evaluating profile strength and similarity. bioRxiv : the preprint server for biology (2024)
Beth A Cimini, Callum Tromans-Coia, David R Stirling, Suganya Sivagurunathan, Rebecca A Senft, Pearl V Ryder, Esteban A Miglietta, Paula Llanos, Nasim Jamali, Barbara Diaz-Rohrer, Shatavisha Dasgupta, Mario Costa Cruz, Erin Weisbart, Anne E Carpenter
A Postdoctoral Training Program in Bioimage Analysis. bioRxiv : the preprint server for biology (2024)
Srijit Seal, Dominic Williams, Layla Hosseini-Gerami, Manas Mahale, Anne E Carpenter, Ola Spjuth, Andreas Bender
Improved Detection of Drug-Induced Liver Injury by Integrating Predicted In Vivo and In Vitro Data. Chemical research in toxicology 37 (8) (2024)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank. Journal of chemical information and modeling 64 (4) (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Udit Surya Saha, Christopher M Dobson, Anne E Carpenter, Shantanu Singh, Andreas Bender, Srijit Seal
Step Forward Cross Validation for Bioactivity Prediction: Out of Distribution Validation in Drug Discovery. bioRxiv : the preprint server for biology (2024)
Srijit Seal, Jordi Carreras-Puigvert, Shantanu Singh, Anne E Carpenter, Ola Spjuth, Andreas Bender
From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability. Molecular biology of the cell 35 (3) (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Robert H W van Dijk, John Arevalo, Mehrtash Babadi, Anne E Carpenter, Shantanu Singh
Capturing cell heterogeneity in representations of cell populations for image-based profiling using contrastive learning. bioRxiv : the preprint server for biology (2024)
Srinivas Niranj Chandrasekaran, Beth A Cimini, Amy Goodale, Lisa Miller, Maria Kost-Alimova, Nasim Jamali, John G Doench, Briana Fritchman, Adam Skepner, Michelle Melanson, Alexandr A Kalinin, John Arevalo, Marzieh Haghighi, Juan C Caicedo, Daniel Kuhn, Desiree Hernandez, James Berstler, Hamdah Shafqat-Abbasi, David E Root, Susanne E Swalley, Sakshi Garg, Shantanu Singh, Anne E Carpenter
Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations. Nature methods 21 (6) (2024)
Nikita Moshkov, Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman, Rebecca A Senft, Yu Han, Mehrtash Babadi, Peter Horvath, Beth A Cimini, Anne E Carpenter, Shantanu Singh, Juan C Caicedo
Learning representations for image-based profiling of perturbations. Nature communications 15 (1) (2024)
Levin M Moser, Nodar Gogoberidze, Andréa Papaleo, Alice Lucas, David Dao, Christoph A Friedrich, Lassi Paavolainen, Csaba Molnar, David R Stirling, Jane Hung, Rex Wang, Callum Tromans-Coia, Bin Li, Edward L Evans, Kevin W Eliceiri, Peter Horvath, Anne E Carpenter, Beth A Cimini
Piximi - An Images to Discovery web tool for bioimages and beyond. bioRxiv : the preprint server for biology (2024)
Anne E Carpenter, Shantanu Singh
Bringing computation to biology by bridging the last mile. Nature cell biology 26 (1) (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Anne E Carpenter, Shantanu Singh
Bringing computation to biology by bridging the last mile. Nature cell biology 26 (1) (2024)
Beth A Cimini, Callum Tromans-Coia, David R Stirling, Suganya Sivagurunathan, Rebecca A Senft, Pearl V Ryder, Esteban A Miglietta, Paula Llanos, Nasim Jamali, Barbara Diaz-Rohrer, Shatavisha Dasgupta, Mario Costa Cruz, Erin Weisbart, Anne E Carpenter
A postdoctoral training program in bioimage analysis. Molecular biology of the cell 35 (9) (2024)
Alexandr A Kalinin, John Arevalo, Loan Vulliard, Erik Serrano, Hillary Tsang, Michael Bornholdt, Bartek Rajwa, Anne E Carpenter, Gregory P Way, Shantanu Singh
A versatile information retrieval framework for evaluating profile strength and similarity. bioRxiv : the preprint server for biology (2024)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank. Journal of chemical information and modeling (2024)
Beth A Cimini, Callum Tromans-Coia, David R Stirling, Suganya Sivagurunathan, Rebecca A Senft, Pearl V Ryder, Esteban A Miglietta, Paula Llanos, Nasim Jamali, Barbara Diaz-Rohrer, Shatavisha Dasgupta, Mario Costa Cruz, Erin Weisbart, Anne E Carpenter
A Postdoctoral Training Program in Bioimage Analysis. bioRxiv : the preprint server for biology (2024)
Beth A Cimini, Callum Tromans-Coia, David R Stirling, Suganya Sivagurunathan, Rebecca A Senft, Pearl V Ryder, Esteban A Miglietta, Paula Llanos, Nasim Jamali, Barbara Diaz-Rohrer, Shatavisha Dasgupta, Mario Costa Cruz, Erin Weisbart, Anne E Carpenter
A Postdoctoral Training Program in Bioimage Analysis. bioRxiv : the preprint server for biology (2024)
Srijit Seal, Dominic Williams, Layla Hosseini-Gerami, Manas Mahale, Anne E Carpenter, Ola Spjuth, Andreas Bender
Improved Detection of Drug-Induced Liver Injury by Integrating Predicted In Vivo and In Vitro Data. Chemical research in toxicology (2024)
Nikita Moshkov, Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman, Rebecca A Senft, Yu Han, Mehrtash Babadi, Peter Horvath, Beth A Cimini, Anne E Carpenter, Shantanu Singh, Juan C Caicedo
Learning representations for image-based profiling of perturbations. Nature communications 15 (1) (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Srijit Seal, Maria-Anna Trapotsi, Ola Spjuth, Shantanu Singh, Jordi Carreras-Puigvert, Nigel Greene, Andreas Bender, Anne E Carpenter
A Decade in a Systematic Review: The Evolution and Impact of Cell Painting. bioRxiv : the preprint server for biology (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Srijit Seal, Jordi Carreras-Puigvert, Shantanu Singh, Anne E Carpenter, Ola Spjuth, Andreas Bender
From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability. Molecular biology of the cell 35 (3) (2024)
Srijit Seal, Maria-Anna Trapotsi, Ola Spjuth, Shantanu Singh, Jordi Carreras-Puigvert, Nigel Greene, Andreas Bender, Anne E Carpenter
A Decade in a Systematic Review: The Evolution and Impact of Cell Painting. bioRxiv : the preprint server for biology (2024)
Srinivas Niranj Chandrasekaran, Beth A Cimini, Amy Goodale, Lisa Miller, Maria Kost-Alimova, Nasim Jamali, John G Doench, Briana Fritchman, Adam Skepner, Michelle Melanson, Alexandr A Kalinin, John Arevalo, Marzieh Haghighi, Juan C Caicedo, Daniel Kuhn, Desiree Hernandez, James Berstler, Hamdah Shafqat-Abbasi, David E Root, Susanne E Swalley, Sakshi Garg, Shantanu Singh, Anne E Carpenter
Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations. Nature methods (2024)
Nikita Moshkov, Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman, Rebecca A Senft, Yu Han, Mehrtash Babadi, Peter Horvath, Beth A Cimini, Anne E Carpenter, Shantanu Singh, Juan C Caicedo
Learning representations for image-based profiling of perturbations. Nature communications 15 (1) (2024)
Nikita Moshkov, Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman, Rebecca A Senft, Yu Han, Mehrtash Babadi, Peter Horvath, Beth A Cimini, Anne E Carpenter, Shantanu Singh, Juan C Caicedo
Learning representations for image-based profiling of perturbations. Nature communications 15 (1) (2024)
Srijit Seal, Jordi Carreras-Puigvert, Shantanu Singh, Anne E Carpenter, Ola Spjuth, Andreas Bender
From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability. Molecular biology of the cell 35 (3) (2024)
John Arevalo, Ellen Su, Jessica D Ewald, Robert van Dijk, Anne E Carpenter, Shantanu Singh
Evaluating batch correction methods for image-based cell profiling. Nature communications 15 (1) (2024)
Alexandr A Kalinin, John Arevalo, Loan Vulliard, Erik Serrano, Hillary Tsang, Michael Bornholdt, Bartek Rajwa, Anne E Carpenter, Gregory P Way, Shantanu Singh
A versatile information retrieval framework for evaluating profile strength and similarity. bioRxiv : the preprint server for biology (2024)
Udit Surya Saha, Christopher M Dobson, Anne E Carpenter, Shantanu Singh, Andreas Bender, Srijit Seal
Step Forward Cross Validation for Bioactivity Prediction: Out of Distribution Validation in Drug Discovery. bioRxiv : the preprint server for biology (2024)
Srijit Seal, Jordi Carreras-Puigvert, Shantanu Singh, Anne E Carpenter, Ola Spjuth, Andreas Bender
From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability. Molecular biology of the cell 35 (3) (2024)
Srijit Seal, Maria-Anna Trapotsi, Ola Spjuth, Shantanu Singh, Jordi Carreras-Puigvert, Nigel Greene, Andreas Bender, Anne E Carpenter
A Decade in a Systematic Review: The Evolution and Impact of Cell Painting. bioRxiv : the preprint server for biology (2024)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank. Journal of chemical information and modeling 64 (4) (2024)
John Arevalo, Ellen Su, Jessica D Ewald, Robert van Dijk, Anne E Carpenter, Shantanu Singh
Evaluating batch correction methods for image-based cell profiling. Nature communications 15 (1) (2024)
Beth A Cimini, Callum Tromans-Coia, David R Stirling, Suganya Sivagurunathan, Rebecca A Senft, Pearl V Ryder, Esteban A Miglietta, Paula Llanos, Nasim Jamali, Barbara Diaz-Rohrer, Shatavisha Dasgupta, Mario Costa Cruz, Erin Weisbart, Anne E Carpenter
A Postdoctoral Training Program in Bioimage Analysis. bioRxiv : the preprint server for biology (2024)
Srinivas Niranj Chandrasekaran, Beth A Cimini, Amy Goodale, Lisa Miller, Maria Kost-Alimova, Nasim Jamali, John G Doench, Briana Fritchman, Adam Skepner, Michelle Melanson, Alexandr A Kalinin, John Arevalo, Marzieh Haghighi, Juan C Caicedo, Daniel Kuhn, Desiree Hernandez, James Berstler, Hamdah Shafqat-Abbasi, David E Root, Susanne E Swalley, Sakshi Garg, Shantanu Singh, Anne E Carpenter
Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations. Nature methods 21 (6) (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank. Journal of chemical information and modeling 64 (4) (2024)
Erin Weisbart, Ankur Kumar, John Arevalo, Anne E Carpenter, Beth A Cimini, Shantanu Singh
Cell Painting Gallery: an open resource for image-based profiling. Nature methods (2024)
Srinivas Niranj Chandrasekaran, Beth A Cimini, Amy Goodale, Lisa Miller, Maria Kost-Alimova, Nasim Jamali, John G Doench, Briana Fritchman, Adam Skepner, Michelle Melanson, Alexandr A Kalinin, John Arevalo, Marzieh Haghighi, Juan C Caicedo, Daniel Kuhn, Desiree Hernandez, James Berstler, Hamdah Shafqat-Abbasi, David E Root, Susanne E Swalley, Sakshi Garg, Shantanu Singh, Anne E Carpenter
Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations. Nature methods 21 (6) (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
John Arevalo, Ellen Su, Jessica D Ewald, Robert van Dijk, Anne E Carpenter, Shantanu Singh
Evaluating batch correction methods for image-based cell profiling. Nature communications 15 (1) (2024)
Beth A Cimini, Callum Tromans-Coia, David R Stirling, Suganya Sivagurunathan, Rebecca A Senft, Pearl V Ryder, Esteban A Miglietta, Paula Llanos, Nasim Jamali, Barbara Diaz-Rohrer, Shatavisha Dasgupta, Mario Costa Cruz, Erin Weisbart, Anne E Carpenter
A postdoctoral training program in bioimage analysis. Molecular biology of the cell 35 (9) (2024)
Matthew Tegtmeyer, Jatin Arora, Samira Asgari, Beth A Cimini, Ajay Nadig, Emily Peirent, Dhara Liyanage, Gregory P Way, Erin Weisbart, Aparna Nathan, Tiffany Amariuta, Kevin C Eggan, Marzieh Haghighi, Steven A McCarroll, Luke O' Connor, Anne E Carpenter, Shantanu Singh, Ralda Nehme, Soumya Raychaudhuri
High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature communications 15 (1) (2024)
Beth A Cimini, Callum Tromans-Coia, David R Stirling, Suganya Sivagurunathan, Rebecca A Senft, Pearl V Ryder, Esteban A Miglietta, Paula Llanos, Nasim Jamali, Barbara Diaz-Rohrer, Shatavisha Dasgupta, Mario Costa Cruz, Erin Weisbart, Anne E Carpenter
A postdoctoral training program in bioimage analysis. Molecular biology of the cell 35 (9) (2024)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank. Journal of chemical information and modeling 64 (4) (2024)
Robert H W van Dijk, John Arevalo, Mehrtash Babadi, Anne E Carpenter, Shantanu Singh
Capturing cell heterogeneity in representations of cell populations for image-based profiling using contrastive learning. bioRxiv : the preprint server for biology (2024)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank. Journal of chemical information and modeling 64 (4) (2024)
Anne E Carpenter, Shantanu Singh
Bringing computation to biology by bridging the last mile. Nature cell biology 26 (1) (2024)
Levin M Moser, Nodar Gogoberidze, Andréa Papaleo, Alice Lucas, David Dao, Christoph A Friedrich, Lassi Paavolainen, Csaba Molnar, David R Stirling, Jane Hung, Rex Wang, Callum Tromans-Coia, Bin Li, Edward L Evans, Kevin W Eliceiri, Peter Horvath, Anne E Carpenter, Beth A Cimini
Piximi - An Images to Discovery web tool for bioimages and beyond. bioRxiv : the preprint server for biology (2024)
Srinivas Niranj Chandrasekaran, Beth A Cimini, Amy Goodale, Lisa Miller, Maria Kost-Alimova, Nasim Jamali, John G Doench, Briana Fritchman, Adam Skepner, Michelle Melanson, Alexandr A Kalinin, John Arevalo, Marzieh Haghighi, Juan C Caicedo, Daniel Kuhn, Desiree Hernandez, James Berstler, Hamdah Shafqat-Abbasi, David E Root, Susanne E Swalley, Sakshi Garg, Shantanu Singh, Anne E Carpenter
Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations. Nature methods 21 (6) (2024)
Nikita Moshkov, Michael Bornholdt, Santiago Benoit, Matthew Smith, Claire McQuin, Allen Goodman, Rebecca A Senft, Yu Han, Mehrtash Babadi, Peter Horvath, Beth A Cimini, Anne E Carpenter, Shantanu Singh, Juan C Caicedo
Learning representations for image-based profiling of perturbations. Nature communications 15 (1) (2024)
Jayme L Dahlin, Bruce K Hua, Beth E Zucconi, Shawn D Nelson, Shantanu Singh, Anne E Carpenter, Jonathan H Shrimp, Evelyne Lima-Fernandes, Mathias J Wawer, Lawrence P W Chung, Ayushi Agrawal, Mary O'Reilly, Dalia Barsyte-Lovejoy, Magdalena Szewczyk, Fengling Li, Parnian Lak, Matthew E Cuellar, Philip A Cole, Jordan L Meier, Tim Thomas, Jonathan B Baell, Peter J Brown, Michael A Walters, Paul A Clemons, Stuart L Schreiber, Bridget K Wagner
Reference compounds for characterizing cellular injury in high-content cellular morphology assays. Nature communications 14 (1) (2023)
Martin H Berryer, Gizem Rizki, Anna Nathanson, Jenny A Klein, Darina Trendafilova, Sara G Susco, Daisy Lam, Angelica Messana, Kristina M Holton, Kyle W Karhohs, Beth A Cimini, Kathleen Pfaff, Anne E Carpenter, Lee L Rubin, Lindy E Barrett
High-content synaptic phenotyping in human cellular models reveals a role for BET proteins in synapse assembly. eLife 12 (2023)
Nasim Jamali, Callum Tromans-Coia, Hamdah Shafqat Abbasi, Kenneth A Giuliano, Mai Hagimoto, Kevin Jan, Erika Kaneko, Stefan Letzsch, Alexander Schreiner, Jonathan Z Sexton, Mahomi Suzuki, O Joseph Trask, Mitsunari Yamaguchi, Fumiki Yanagawa, Michael Yang, Anne E Carpenter, Beth A Cimini
Assessing the performance of the Cell Painting assay across different imaging systems. bioRxiv : the preprint server for biology (2023)
Jayme L Dahlin, Bruce K Hua, Beth E Zucconi, Shawn D Nelson, Shantanu Singh, Anne E Carpenter, Jonathan H Shrimp, Evelyne Lima-Fernandes, Mathias J Wawer, Lawrence P W Chung, Ayushi Agrawal, Mary O'Reilly, Dalia Barsyte-Lovejoy, Magdalena Szewczyk, Fengling Li, Parnian Lak, Matthew E Cuellar, Philip A Cole, Jordan L Meier, Tim Thomas, Jonathan B Baell, Peter J Brown, Michael A Walters, Paul A Clemons, Stuart L Schreiber, Bridget K Wagner
Reference compounds for characterizing cellular injury in high-content cellular morphology assays. Nature communications 14 (1) (2023)
Martin H Berryer, Gizem Rizki, Anna Nathanson, Jenny A Klein, Darina Trendafilova, Sara G Susco, Daisy Lam, Angelica Messana, Kristina M Holton, Kyle W Karhohs, Beth A Cimini, Kathleen Pfaff, Anne E Carpenter, Lee L Rubin, Lindy E Barrett
High-content synaptic phenotyping in human cellular models reveals a role for BET proteins in synapse assembly. eLife 12 (2023)
Martin H Berryer, Gizem Rizki, Anna Nathanson, Jenny A Klein, Darina Trendafilova, Sara G Susco, Daisy Lam, Angelica Messana, Kristina M Holton, Kyle W Karhohs, Beth A Cimini, Kathleen Pfaff, Anne E Carpenter, Lee L Rubin, Lindy E Barrett
High-content synaptic phenotyping in human cellular models reveals a role for BET proteins in synapse assembly. eLife 12 (2023)
Martin H Berryer, Gizem Rizki, Anna Nathanson, Jenny A Klein, Darina Trendafilova, Sara G Susco, Daisy Lam, Angelica Messana, Kristina M Holton, Kyle W Karhohs, Beth A Cimini, Kathleen Pfaff, Anne E Carpenter, Lee L Rubin, Lindy E Barrett
High-content synaptic phenotyping in human cellular models reveals a role for BET proteins in synapse assembly. eLife 12 (2023)
Meraj Ramezani, Julia R Bauman, Avtar Singh, Erin Weisbart, John Yong, Maria Lozada, Gregory P Way, Sanam L Kavari, Celeste Diaz, Marzieh Haghighi, Thiago Martins Batista, Joaquín Pérez-Schindler, Melina Claussnitzer, Shantanu Singh, Beth A Cimini, Paul C Blainey, Anne E Carpenter, Calvin H Jan, James T Neal
A genome-wide atlas of human cell morphology. bioRxiv : the preprint server for biology (2023)
Martin H Berryer, Gizem Rizki, Anna Nathanson, Jenny A Klein, Darina Trendafilova, Sara G Susco, Daisy Lam, Angelica Messana, Kristina M Holton, Kyle W Karhohs, Beth A Cimini, Kathleen Pfaff, Anne E Carpenter, Lee L Rubin, Lindy E Barrett
High-content synaptic phenotyping in human cellular models reveals a role for BET proteins in synapse assembly. eLife 12 (2023)
Jessica Lacoste, Marzieh Haghighi, Shahan Haider, Zhen-Yuan Lin, Dmitri Segal, Chloe Reno, Wesley Wei Qian, Xueting Xiong, Hamdah Shafqat Abbasi, Pearl V Ryder, Rebecca A Senft, Beth A Cimini, Frederick P Roth, Michael S Calderwood, David Hill, Marc Vidal, S Stephen Yi, Nidhi Sahni, Jian Peng, Anne-Claude Gingras, Shantanu Singh, Anne E Carpenter, Mikko Taipale
Pervasive mislocalization of pathogenic coding variants underlying human disorders. bioRxiv : the preprint server for biology (2023)
Milad 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, Andy Lee, Philippe DeCorwin-Martin, Shafqat Rasool, JiaMin Huang, Yu Han, Srinivas Niranj Chandrasekaran, Lisa Miller, Maria Kost-Alimova, Adam Skepner, Shantanu Singh, Jeffrey Munzar, Anne E Carpenter, David Juncker
nELISA: A high-throughput, high-plex platform enables quantitative profiling of the secretome. bioRxiv : the preprint server for biology (2023)
Megan E Kelley, Adi Y Berman, David R Stirling, Beth A Cimini, Yu Han, Shantanu Singh, Anne E Carpenter, Tarun M Kapoor, Gregory P Way
High-content microscopy reveals a morphological signature of bortezomib resistance. bioRxiv : the preprint server for biology (2023)
Nasim Jamali, Callum Tromans-Coia, Hamdah Shafqat Abbasi, Kenneth A Giuliano, Mai Hagimoto, Kevin Jan, Erika Kaneko, Stefan Letzsch, Alexander Schreiner, Jonathan Z Sexton, Mahomi Suzuki, O Joseph Trask, Mitsunari Yamaguchi, Fumiki Yanagawa, Michael Yang, Anne E Carpenter, Beth A Cimini
Assessing the performance of the Cell Painting assay across different imaging systems. bioRxiv : the preprint server for biology (2023)
Viktoria Glunk, Samantha Laber, Nasa Sinnott-Armstrong, Débora R Sobreira, Sophie M Strobel, Thiago Martins Batista, Phil Kubitz, Bahareh Nemati Moud, Hannah Ebert, Yi Huang, Beate Brandl, Garrett Garborcauskas, Julius Honecker, David R Stirling, Nezar Abdennur, Virtu Calabuig-Navarro, Thomas Skurk, Soeren Ocvirk, Kerstin Stemmer, Beth A Cimini, Anne E Carpenter, Simon Nitter Dankel, Cecilia M Lindgren, Hans Hauner, Marcelo Aguiar Nobrega, Melina Claussnitzer
A non-coding variant linked to metabolic obesity with normal weight affects actin remodelling in subcutaneous adipocytes. Nature metabolism 5 (5) (2023)
Callum Tromans-Coia, Nasim Jamali, Hamdah Shafqat Abbasi, Kenneth A Giuliano, Mai Hagimoto, Kevin Jan, Erika Kaneko, Stefan Letzsch, Alexander Schreiner, Jonathan Z Sexton, Mahomi Suzuki, O Joseph Trask, Mitsunari Yamaguchi, Fumiki Yanagawa, Michael Yang, Anne E Carpenter, Beth A Cimini
Assessing the performance of the Cell Painting assay across different imaging systems. Cytometry. Part A : the journal of the International Society for Analytical Cytology (2023)
Martin H Berryer, Gizem Rizki, Anna Nathanson, Jenny A Klein, Darina Trendafilova, Sara G Susco, Daisy Lam, Angelica Messana, Kristina M Holton, Kyle W Karhohs, Beth A Cimini, Kathleen Pfaff, Anne E Carpenter, Lee L Rubin, Lindy E Barrett
High-content synaptic phenotyping in human cellular models reveals a role for BET proteins in synapse assembly. eLife 12 (2023)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA DICTrank. bioRxiv : the preprint server for biology (2023)
Martin H Berryer, Gizem Rizki, Anna Nathanson, Jenny A Klein, Darina Trendafilova, Sara G Susco, Daisy Lam, Angelica Messana, Kristina M Holton, Kyle W Karhohs, Beth A Cimini, Kathleen Pfaff, Anne E Carpenter, Lee L Rubin, Lindy E Barrett
High-content synaptic phenotyping in human cellular models reveals a role for BET proteins in synapse assembly. eLife 12 (2023)
Megan E Kelley, Adi Y Berman, David R Stirling, Beth A Cimini, Yu Han, Shantanu Singh, Anne E Carpenter, Tarun M Kapoor, Gregory P Way
High-content microscopy reveals a morphological signature of bortezomib resistance. bioRxiv : the preprint server for biology (2023)
Jayme L Dahlin, Bruce K Hua, Beth E Zucconi, Shawn D Nelson, Shantanu Singh, Anne E Carpenter, Jonathan H Shrimp, Evelyne Lima-Fernandes, Mathias J Wawer, Lawrence P W Chung, Ayushi Agrawal, Mary O'Reilly, Dalia Barsyte-Lovejoy, Magdalena Szewczyk, Fengling Li, Parnian Lak, Matthew E Cuellar, Philip A Cole, Jordan L Meier, Tim Thomas, Jonathan B Baell, Peter J Brown, Michael A Walters, Paul A Clemons, Stuart L Schreiber, Bridget K Wagner
Reference compounds for characterizing cellular injury in high-content cellular morphology assays. Nature communications 14 (1) (2023)
Nikita Moshkov, Tim Becker, Kevin Yang, Peter Horvath, Vlado Dancik, Bridget K Wagner, Paul A Clemons, Shantanu Singh, Anne E Carpenter, Juan C Caicedo
Predicting compound activity from phenotypic profiles and chemical structures. Nature communications 14 (1) (2023)
Anne E Carpenter, Beth A Cimini, Kevin W Eliceiri
Smart microscopes of the future. Nature methods 20 (7) (2023)
Claire M Barnes, Ann L Power, Daniel G Barber, Richard K Tennant, Richard T Jones, G Rob Lee, Jackie Hatton, Angela Elliott, Joana Zaragoza-Castells, Stephen M Haley, Huw D Summers, Minh Doan, Anne E Carpenter, Paul Rees, John Love
Deductive automated pollen classification in environmental samples via exploratory deep learning and imaging flow cytometry. The New phytologist (2023)
Martin H Berryer, Gizem Rizki, Anna Nathanson, Jenny A Klein, Darina Trendafilova, Sara G Susco, Daisy Lam, Angelica Messana, Kristina M Holton, Kyle W Karhohs, Beth A Cimini, Kathleen Pfaff, Anne E Carpenter, Lee L Rubin, Lindy E Barrett
High-content synaptic phenotyping in human cellular models reveals a role for BET proteins in synapse assembly. eLife 12 (2023)
Milad 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, Andy Lee, Philippe DeCorwin-Martin, Shafqat Rasool, JiaMin Huang, Yu Han, Srinivas Niranj Chandrasekaran, Lisa Miller, Maria Kost-Alimova, Adam Skepner, Shantanu Singh, Jeffrey Munzar, Anne E Carpenter, David Juncker
nELISA: A high-throughput, high-plex platform enables quantitative profiling of the secretome. bioRxiv : the preprint server for biology (2023)
Beth A Cimini, Srinivas Niranj Chandrasekaran, Maria Kost-Alimova, Lisa Miller, Amy Goodale, Briana Fritchman, Patrick Byrne, Sakshi Garg, Nasim Jamali, David J Logan, John B Concannon, Charles-Hugues Lardeau, Elizabeth Mouchet, Shantanu Singh, Hamdah Shafqat Abbasi, Peter Aspesi, Justin D Boyd, Tamara Gilbert, David Gnutt, Santosh Hariharan, Desiree Hernandez, Gisela Hormel, Karolina Juhani, Michelle Melanson, Lewis H Mervin, Tiziana Monteverde, James E Pilling, Adam Skepner, Susanne E Swalley, Anita Vrcic, Erin Weisbart, Guy Williams, Shan Yu, Bolek Zapiec, Anne E Carpenter
Optimizing the Cell Painting assay for image-based profiling. Nature protocols (2023)
John Arevalo, Robert van Dijk, Anne E Carpenter, Shantanu Singh
Evaluating batch correction methods for image-based cell profiling. bioRxiv : the preprint server for biology (2023)
Nasim Jamali, Callum Tromans-Coia, Hamdah Shafqat Abbasi, Kenneth A Giuliano, Mai Hagimoto, Kevin Jan, Erika Kaneko, Stefan Letzsch, Alexander Schreiner, Jonathan Z Sexton, Mahomi Suzuki, O Joseph Trask, Mitsunari Yamaguchi, Fumiki Yanagawa, Michael Yang, Anne E Carpenter, Beth A Cimini
Assessing the performance of the Cell Painting assay across different imaging systems. bioRxiv : the preprint server for biology (2023)
Megan E Kelley, Adi Y Berman, David R Stirling, Beth A Cimini, Yu Han, Shantanu Singh, Anne E Carpenter, Tarun M Kapoor, Gregory P Way
High-content microscopy reveals a morphological signature of bortezomib resistance. eLife 12 (2023)
Yuen Ler Chow, Shantanu Singh, Anne E Carpenter, Gregory P Way
Predicting drug polypharmacology from cell morphology readouts using variational autoencoder latent space arithmetic. PLoS computational biology 18 (2) (2022)
Anne E Carpenter
Why I shrank my lab by half. eLife 11 (2022)

Anne E Carpenter.css-eqlu8i{font-size:small;padding-left:4px;} (Anne Carpenter, A E Carpenter)

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Anne E Carpenter (Anne Carpenter, A E Carpenter)