Beth A Cimini
Beth A Cimini
Broad Institute
Verified email at - Homepage
Cited by
Cited by
Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system
B Chen, LA Gilbert, BA Cimini, J Schnitzbauer, W Zhang, GW Li, J Park, ...
Cell 155 (7), 1479-1491, 2013
CellProfiler 3.0: Next-generation image processing for biology
C McQuin, A Goodman, V Chernyshev, L Kamentsky, BA Cimini, ...
PLoS biology 16 (7), e2005970, 2018
Genetic and transcriptional evolution alters cancer cell line drug response
U Ben-David, B Siranosian, G Ha, H Tang, Y Oren, K Hinohara, ...
Nature 560 (7718), 325-330, 2018
CellProfiler 4: improvements in speed, utility and usability
DR Stirling, MJ Swain-Bowden, AM Lucas, AE Carpenter, BA Cimini, ...
BMC Bioinformatics 22 (1), 1-11, 2021
Nucleus segmentation across imaging experiments: the 2018 Data Science Bowl
JC Caicedo, A Goodman, KW Karhohs, BA Cimini, J Ackerman, ...
Nature methods 16 (12), 1247-1253, 2019
Visualization of actin filaments and monomers in somatic cell nuclei
BJ Belin, BA Cimini, EH Blackburn, RD Mullins
Molecular biology of the cell 24 (7), 982-994, 2013
Common limitations of image processing metrics: A picture story
A Reinke, MD Tizabi, CH Sudre, M Eisenmann, T Rädsch, M Baumgartner, ...
arXiv preprint arXiv:2104.05642, 2021
Metrics reloaded: recommendations for image analysis validation
L Maier-Hein, A Reinke, P Godau, MD Tizabi, F Buettner, E Christodoulou, ...
Nature methods, 1-18, 2024
CellProfiler Analyst 3.0: accessible data exploration and machine learning for image analysis
DR Stirling, AE Carpenter, BA Cimini
Bioinformatics 37 (21), 3992-3994, 2021
Open-source deep-learning software for bioimage segmentation
AM Lucas, PV Ryder, B Li, BA Cimini, KW Eliceiri, AE Carpenter
Molecular Biology of the Cell 32 (9), 823-829, 2021
Morphology and gene expression profiling provide complementary information for mapping cell state
GP Way, T Natoli, A Adeboye, L Litichevskiy, A Yang, X Lu, JC Caicedo, ...
Cell Systems, 2022
Control of osteocyte dendrite formation by Sp7 and its target gene osteocrin
JS Wang, T Kamath, CM Mazur, F Mirzamohammadi, D Rotter, H Hojo, ...
Nature Communications 12 (1), 1-20, 2021
High-dimensional gene expression and morphology profiles of cells across 28,000 genetic and chemical perturbations
M Haghighi, JC Caicedo, BA Cimini, AE Carpenter, S Singh
Nature Methods, 1-8, 2022
Optimizing the Cell Painting assay for image-based profiling
BA Cimini, SN Chandrasekaran, M Kost-Alimova, L Miller, A Goodale, ...
Nature protocols 18 (7), 1981-2013, 2023
Learning representations for image-based profiling of perturbations
N Moshkov, M Bornholdt, S Benoit, M Smith, C McQuin, A Goodman, ...
Nature Communications 15 (1), 1594, 2024
In situ visualization of telomere elongation patterns in human cells
ME Diolaiti, BA Cimini, R Kageyama, FA Charles, BA Stohr
Nucleic acids research 41 (18), e176-e176, 2013
OME-Zarr: a cloud-optimized bioimaging file format with international community support
J Moore, D Basurto-Lozada, S Besson, J Bogovic, J Bragantini, EM Brown, ...
Histochemistry and Cell Biology 160 (3), 223-251, 2023
JUMP Cell Painting dataset: morphological impact of 136,000 chemical and genetic perturbations
SN Chandrasekaran, J Ackerman, E Alix, DM Ando, J Arevalo, M Bennion, ...
bioRxiv, 2023.03. 23.534023, 2023
Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations
SN Chandrasekaran, BA Cimini, A Goodale, L Miller, M Kost-Alimova, ...
bioRxiv, 2022
Scientific Community Image Forum: A discussion forum for scientific image software
CT Rueden, J Ackerman, ET Arena, J Eglinger, BA Cimini, A Goodman, ...
PLoS biology 17 (6), e3000340, 2019
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