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Beth A. Cimini

institut national de la sante et de la recherche medicale (inserm)

35H-index
153Paper Count
1.1WCitation Count
Published Papers 42
Publication Date
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GloBIAS: strengthening the foundations of bioimage analysis
errNature Methods
IF32.1
err2026-04-01
err0
PREAI
errCorbat, Agustin A.; Walther, Christa G.; de la Ballina, Laura R.; Condon, Nicholas D.; Felder, Alessandro A.; Schatz, Martin; Schmerl, Bettina; Sugawara, Ko; Prats, Clara; Klemm, Anna; Miura, Kota; Sampaio, Paula; Tischer, Christian; Levet, Florian; D'Antuono, Rocco; Cimini, Beth A.; Haase, Robert
errShare
errSave
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
errShare
errSave
Roadmap on deep learning for microscopy
errjournal of physics: photonics
IF0
err2026-01-29
err0
errOAAI
errGiovanni Volpe; Carolina Wählby; Lei Tian; Michael Hecht; Artur Yakimovich; Kristina Monakhova; Laura Waller; Ivo F Sbalzarini; Christopher A Metzler; Mingyang Xie; Kevin Zhang; Isaac C D Lenton; Halina Rubinsztein-Dunlop; Daniel Brunner; Bijie Bai; Aydogan Ozcan; Daniel Midtvedt; Hao Wang; Tongyu Li; Nataša Sladoje; Joakim Lindblad; Jason T Smith; Marien Ochoa; Margarida Barroso; Xavier Intes; Tong Qiu; Li-Yu Yu; Sixian You; Yongtao Liu; Maxim A Ziatdinov; Sergei V Kalinin; Arlo Sheridan; Uri Manor; Elias Nehme; Ofri Goldenberg; Yoav Shechtman; Henrik K Moberg; Christoph Langhammer; Barbora Špačková; Saga Helgadottir; Benjamin Midtvedt; Aykut Argun; Tobias Thalheim; Frank Cichos; Stefano Bo; Lars Hubatsch; Jesus Pineda; Carlo Manzo; Harshith Bachimanchi; Erik Selander; Antoni Homs-Corbera; Martin Fränzl; Kevin de Haan; Yair Rivenson; Zofia Korczak; Caroline Beck Adiels; Mite Mijalkov; Dániel Veréb; Yu-Wei Chang; Joana B Pereira; Damian Matuszewski; Gustaf Kylberg; Ida-Maria Sintorn; Juan C Caicedo; Beth A Cimini; Muyinatu A Lediju Bell; Bruno M Saraiva; Guillaume Jacquemet; Ricardo Henriques; Wei Ouyang; Trang Le; Estibaliz Gómez-de-Mariscal; Daniel Sage; Arrate Muñoz-Barrutia; Ebba Josefson Lindqvist; Johanna Bergman
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errSave
Bead-based approaches for increased sensitivity and multiplexing of CRISPR diagnostics
errNature Biomedical Engineering
IF26.6
err2025-09-22
err0
errOAAI
errSameed M. Siddiqui; Nicole L. Welch; Tien G. Nguyen; Amaya Razmi; Tianyi Chang; Rebecca Senft; Jon Arizti-Sanz; Marzieh E. Mirhashemi; David R. Stirling; Cheri M. Ackerman; Beth A. Cimini; Paul C. Blainey; Pardis C. Sabeti; Cameron Myhrvold
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
errShare
errSave
Inflammatory Macrophages Associate With Tissue Injury and Fibrosis in a Mouse Model of Tuberculosis
errJOURNAL OF INFECTIOUS DISEASES
IF4.5
err2025-08-01
err0
PREAI
errBoucau, Julie; Castillo, Jennie Ruelas; Naidoo, Threnesan; Liu, Yuming; Dasgupta, Shatavisha; Jain, Neha; Jacobson, Nicholas E.; Nargan, Kievershen; Cimini, Beth A.; Eliceiri, Kevin W.; Steyn, Adrie J. C.; Barczak, Amy K.
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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
errShare
errSave
Enabling global image data sharing in the life sciences
errNATURE METHODS
IF32.1
err2025-03-28
err0
errOAAI
errBajcsy, Peter; Bhattiprolu, Sreenivas; Boerner, Katy; Cimini, Beth A.; Collinson, Lucy; Ellenberg, Jan; Fiolka, Reto; Giger, Maryellen; Goscinski, Wojtek; Hartley, Matthew; Hotaling, Nathan; Horwitz, Rick; Jug, Florian; Kemmer, Isabel; Kreshuk, Anna; Lundberg, Emma; Mathur, Aastha; Narayan, Kedar; Onami, Shuichi; Plant, Anne L.; Prior, Fred; Swedlow, Jason R.; Taylor, Adam; Keppler, Antje
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errSave
Cellpose as a reliable method for single-cell segmentation of autofluorescence microscopy images
errSCIENTIFIC REPORTS
IF3.9
err2025-02-14
err0
errOAAI
errRiendeau, Jeremiah M.; Gillette, Amani A.; Guzman, Emmanuel Contreras; Cruz, Mario Costa; Kralovec, Aleksander; Udgata, Shirsa; Schmitz, Alexa; Deming, Dustin A.; Cimini, Beth A.; Skala, Melissa C.
errShare
errSave
The crucial role of bioimage analysts in scientific research and publication
errJOURNAL OF CELL SCIENCE
IF3.6
err2024-10-30
err1
errOAAI
errCimini, Beth A.; Bankhead, Peter; D'Antuono, Rocco; Fazeli, Elnaz; Fernandez-Rodriguez, Julia; Fuster-Barcelo, Caterina; Haase, Robert; Jambor, Helena Klara; Jones, Martin L.; Jug, Florian; Klemm, Anna H.; Kreshuk, Anna; Marcotti, Stefania; Martins, Gabriel G.; Mcardle, Sara; Miura, Kota; Munoz-Barrutia, Arrate; Murphy, Laura C.; Nelson, Michael S.; Norrelykke, Simon F.; Paul-Gilloteaux, Perrine; Pengo, Thomas; Pylvanainen, Joanna W.; Pytowski, Lior; Ravera, Arianna; Reinke, Annika; Rekik, Yousr; Strambio-De-Castillia, Caterina; Thedie, Daniel; Uhlmann, Virginie; Umney, Oliver; Wiggins, Laura; Eliceiri, Kevin W.
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
errShare
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.
errShare
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.
errShare
errSave
The multimodality cell segmentation challenge: toward universal solutions
errNATURE METHODS
IF32.1
err2024-03-26
err6
PREAI
errMa, Jun; Xie, Ronald; Ayyadhury, Shamini; Ge, Cheng; Gupta, Anubha; Gupta, Ritu; Gu, Song; Zhang, Yao; Lee, Gihun; Kim, Joonkee; Lou, Wei; Li, Haofeng; Upschulte, Eric; Dickscheid, Timo; de Almeida, Jose Guilherme; Wang, Yixin; Han, Lin; Yang, Xin; Labagnara, Marco; Gligorovski, Vojislav; Scheder, Maxime; Rahi, Sahand Jamal; Kempster, Carly; Pollitt, Alice; Espinosa, Leon; Mignot, Tam; Middeke, Jan Moritz; Eckardt, Jan-Niklas; Li, Wangkai; Li, Zhaoyang; Cai, Xiaochen; Bai, Bizhe; Greenwald, Noah F.; Van Valen, David; Weisbart, Erin; Cimini, Beth A.; Cheung, Trevor; Brueck, Oscar; Bader, Gary D.; Wang, Bo
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.
errShare
errSave
Metrics reloaded: recommendations for image analysis validation
errNATURE METHODS
IF32.1
err2024-02-12
err59
errOAAI
errMaier-Hein, Lena; Reinke, Annika; Godau, Patrick; Tizabi, Minu D.; Buettner, Florian; Christodoulou, Evangelia; Glocker, Ben; Isensee, Fabian; Kleesiek, Jens; Kozubek, Michal; Reyes, Mauricio; Riegler, Michael A.; Wiesenfarth, Manuel; Kavur, A. Emre; Sudre, Carole H.; Baumgartner, Michael; Eisenmann, Matthias; Heckmann-Noetzel, Doreen; Raedsch, Tim; Acion, Laura; Antonelli, Michela; Arbel, Tal; Bakas, Spyridon; Benis, Arriel; Blaschko, Matthew B.; Cardoso, M. Jorge; Cheplygina, Veronika; Cimini, Beth A.; Collins, Gary S.; Farahani, Keyvan; Ferrer, Luciana; Galdran, Adrian; van Ginneken, Bram; Haase, Robert; Hashimoto, Daniel A.; Hoffman, Michael M.; Huisman, Merel; Jannin, Pierre; Kahn, Charles E.; Kainmueller, Dagmar; Kainz, Bernhard; Karargyris, Alexandros; Karthikesalingam, Alan; Kofler, Florian; Kopp-Schneider, Annette; Kreshuk, Anna; Kurc, Tahsin; Landman, Bennett A.; Litjens, Geert; Madani, Amin; Maier-Hein, Klaus; Martel, Anne L.; Mattson, Peter; Meijering, Erik; Menze, Bjoern; Moons, Karel G. M.; Mueller, Henning; Nichyporuk, Brennan; Nickel, Felix; Petersen, Jens; Rajpoot, Nasir; Rieke, Nicola; Saez-Rodriguez, Julio; Sanchez, Clara I.; Shetty, Shravya; van Smeden, Maarten; Summers, Ronald M.; Taha, Abdel A.; Tiulpin, Aleksei; Tsaftaris, Sotirios A.; Van Calster, Ben; Varoquaux, Gael; Jaeger, Paul F.
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errSave
Understanding metric-related pitfalls in image analysis validation
errNATURE METHODS
IF32.1
err2024-02-12
err24
errOAAI
errReinke, Annika; Tizabi, Minu D.; Baumgartner, Michael; Eisenmann, Matthias; Heckmann-Noetzel, Doreen; Kavur, A. Emre; Raedsch, Tim; Sudre, Carole H.; Acion, Laura; Antonelli, Michela; Arbel, Tal; Bakas, Spyridon; Benis, Arriel; Buettner, Florian; Cardoso, M. Jorge; Cheplygina, Veronika; Chen, Jianxu; Christodoulou, Evangelia; Cimini, Beth A.; Farahani, Keyvan; Ferrer, Luciana; Galdran, Adrian; van Ginneken, Bram; Glocker, Ben; Godau, Patrick; Hashimoto, Daniel A.; Hoffman, Michael M.; Huisman, Merel; Isensee, Fabian; Jannin, Pierre; Kahn, Charles E.; Kainmueller, Dagmar; Kainz, Bernhard; Karargyris, Alexandros; Kleesiek, Jens; Kofler, Florian; Kooi, Thijs; Kopp-Schneider, Annette; Kozubek, Michal; Kreshuk, Anna; Kurc, Tahsin; Landman, Bennett A.; Litjens, Geert; Madani, Amin; Maier-Hein, Klaus; Martel, Anne L.; Meijering, Erik; Menze, Bjoern; Moons, Karel G. M.; Mueller, Henning; Nichyporuk, Brennan; Nickel, Felix; Petersen, Jens; Rafelski, Susanne M.; Rajpoot, Nasir; Reyes, Mauricio; Riegler, Michael A.; Rieke, Nicola; Saez-Rodriguez, Julio; Sanchez, Clara I.; Shetty, Shravya; Summers, Ronald M.; Taha, Abdel A.; Tiulpin, Aleksei; Tsaftaris, Sotirios A.; Van Calster, Ben; Varoquaux, Gael; Yaniv, Ziv R.; Jaeger, Paul F.; Maier-Hein, Lena
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errSave
Defining the boundaries: challenges and advances in identifying cells in microscopy images
errCURRENT OPINION IN BIOTECHNOLOGY
IF7
err2024-02-01
err2
errOAAI
errGogoberidze, Nodar; Cimini, Beth A.
errShare
errSave
High-dimensional phenotyping to define the genetic basis of cellular morphology
errNATURE COMMUNICATIONS
IF15.7
err2024-01-06
err11
errOAAI
errTegtmeyer, Matthew; Arora, Jatin; Asgari, Samira; Cimini, Beth A.; Nadig, Ajay; Peirent, Emily; Liyanage, Dhara; Way, Gregory P.; Weisbart, Erin; Nathan, Aparna; Amariuta, Tiffany; Eggan, Kevin; Haghighi, Marzieh; Mccarroll, Steven A.; O'Connor, Luke; Carpenter, Anne E.; Singh, Shantanu; Nehme, Ralda; Raychaudhuri, Soumya
errShare
errSave
High-content microscopy reveals a morphological signature of bortezomib resistance
errELIFE
IF0
err2023-09-27
err4
errOAAI
errKelley, Megan E.; Berman, Adi Y.; Stirling, David R.; Cimini, Beth A.; Han, Yu; Singh, Shantanu; Carpenter, Anne E.; Kapoor, Tarun M.; Way, Gregory P.
errShare
errSave

Research Directions

No research directions
Co-authors
Cooperation Journals
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Todd R. Golub
H-index: 176 · Papers: 749
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Rameen Beroukhim
H-index: 149 · Papers: 899
C
Cecilia M. Lindgren
H-index: 141 · Papers: 667
S
Steven A. McCarroll
H-index: 131 · Papers: 405
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