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CellProfiler 3.0: Next-generation image processing for biology.
McQuin C, Goodman A, Chernyshev V, Kamentsky L, Cimini BA, Karhohs KW, Doan M, Ding L, Rafelski SM, Thirstrup D, Wiegraebe W, Singh S, Becker T, Caicedo JC, Carpenter AE. McQuin C, et al. Among authors: caicedo jc. PLoS Biol. 2018 Jul 3;16(7):e2005970. doi: 10.1371/journal.pbio.2005970. eCollection 2018 Jul. PLoS Biol. 2018. PMID: 29969450 Free PMC article.
Applications in image-based profiling of perturbations.
Caicedo JC, Singh S, Carpenter AE. Caicedo JC, et al. Curr Opin Biotechnol. 2016 Jun;39:134-142. doi: 10.1016/j.copbio.2016.04.003. Epub 2016 Apr 17. Curr Opin Biotechnol. 2016. PMID: 27089218 Free article. Review.
Data-analysis strategies for image-based cell profiling.
Caicedo JC, Cooper S, Heigwer F, Warchal S, Qiu P, Molnar C, Vasilevich AS, Barry JD, Bansal HS, Kraus O, Wawer M, Paavolainen L, Herrmann MD, Rohban M, Hung J, Hennig H, Concannon J, Smith I, Clemons PA, Singh S, Rees P, Horvath P, Linington RG, Carpenter AE. Caicedo JC, et al. Nat Methods. 2017 Aug 31;14(9):849-863. doi: 10.1038/nmeth.4397. Nat Methods. 2017. PMID: 28858338 Free PMC article.
Weakly Supervised Learning of Single-Cell Feature Embeddings.
Caicedo JC, McQuin C, Goodman A, Singh S, Carpenter AE. Caicedo JC, et al. Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit. 2018 Jun;2018:9309-9318. doi: 10.1109/CVPR.2018.00970. Epub 2018 Dec 17. Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit. 2018. PMID: 30918435 Free PMC article.
Nucleus segmentation across imaging experiments: the 2018 Data Science Bowl.
Caicedo JC, Goodman A, Karhohs KW, Cimini BA, Ackerman J, Haghighi M, Heng C, Becker T, Doan M, McQuin C, Rohban M, Singh S, Carpenter AE. Caicedo JC, et al. Nat Methods. 2019 Dec;16(12):1247-1253. doi: 10.1038/s41592-019-0612-7. Epub 2019 Oct 21. Nat Methods. 2019. PMID: 31636459 Free PMC article.
Label-Free Leukemia Monitoring by Computer Vision.
Doan M, Case M, Masic D, Hennig H, McQuin C, Caicedo J, Singh S, Goodman A, Wolkenhauer O, Summers HD, Jamieson D, Delft FV, Filby A, Carpenter AE, Rees P, Irving J. Doan M, et al. Cytometry A. 2020 Apr;97(4):407-414. doi: 10.1002/cyto.a.23987. Epub 2020 Feb 24. Cytometry A. 2020. PMID: 32091180 Free PMC article.
Objective assessment of stored blood quality by deep learning.
Doan M, Sebastian JA, Caicedo JC, Siegert S, Roch A, Turner TR, Mykhailova O, Pinto RN, McQuin C, Goodman A, Parsons MJ, Wolkenhauer O, Hennig H, Singh S, Wilson A, Acker JP, Rees P, Kolios MC, Carpenter AE. Doan M, et al. Among authors: caicedo jc. Proc Natl Acad Sci U S A. 2020 Sep 1;117(35):21381-21390. doi: 10.1073/pnas.2001227117. Epub 2020 Aug 24. Proc Natl Acad Sci U S A. 2020. PMID: 32839303 Free PMC article.
Image-based cell phenotyping with deep learning.
Pratapa A, Doron M, Caicedo JC. Pratapa A, et al. Among authors: caicedo jc. Curr Opin Chem Biol. 2021 Dec;65:9-17. doi: 10.1016/j.cbpa.2021.04.001. Epub 2021 May 21. Curr Opin Chem Biol. 2021. PMID: 34023800 Review.
94 results