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Year Number of Results
1985 1
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2003 3
2005 3
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2007 1
2008 2
2010 2
2012 2
2013 3
2014 1
2015 6
2016 4
2017 6
2018 11
2019 6
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2021 16
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2025 2

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110 results

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Page 1
Opportunities and obstacles for deep learning in biology and medicine.
Ching T, Himmelstein DS, Beaulieu-Jones BK, Kalinin AA, Do BT, Way GP, Ferrero E, Agapow PM, Zietz M, Hoffman MM, Xie W, Rosen GL, Lengerich BJ, Israeli J, Lanchantin J, Woloszynek S, Carpenter AE, Shrikumar A, Xu J, Cofer EM, Lavender CA, Turaga SC, Alexandari AM, Lu Z, Harris DJ, DeCaprio D, Qi Y, Kundaje A, Peng Y, Wiley LK, Segler MHS, Boca SM, Swamidass SJ, Huang A, Gitter A, Greene CS. Ching T, et al. Among authors: kalinin aa. J R Soc Interface. 2018 Apr;15(141):20170387. doi: 10.1098/rsif.2017.0387. J R Soc Interface. 2018. PMID: 29618526 Free PMC article. Review.
Reproducible image-based profiling with Pycytominer.
Serrano E, Chandrasekaran SN, Bunten D, Brewer KI, Tomkinson J, Kern R, Bornholdt M, Fleming S, Pei R, Arevalo J, Tsang H, Rubinetti V, Tromans-Coia C, Becker T, Weisbart E, Bunne C, Kalinin AA, Senft R, Taylor SJ, Jamali N, Adeboye A, Abbasi HS, Goodman A, Caicedo JC, Carpenter AE, Cimini BA, Singh S, Way GP. Serrano E, et al. Among authors: kalinin aa. ArXiv [Preprint]. 2024 Jul 2:arXiv:2311.13417v2. ArXiv. 2024. Update in: Nat Methods. 2025 Mar 3. doi: 10.1038/s41592-025-02611-8. PMID: 38045474 Free PMC article. Updated. Preprint.
Reproducible image-based profiling with Pycytominer.
Serrano E, Chandrasekaran SN, Bunten D, Brewer KI, Tomkinson J, Kern R, Bornholdt M, Fleming SJ, Pei R, Arevalo J, Tsang H, Rubinetti V, Tromans-Coia C, Becker T, Weisbart E, Bunne C, Kalinin AA, Senft R, Taylor SJ, Jamali N, Adeboye A, Abbasi HS, Goodman A, Caicedo JC, Carpenter AE, Cimini BA, Singh S, Way GP. Serrano E, et al. Among authors: kalinin aa. Nat Methods. 2025 Mar 3. doi: 10.1038/s41592-025-02611-8. Online ahead of print. Nat Methods. 2025. PMID: 40032995
Three million images and morphological profiles of cells treated with matched chemical and genetic perturbations.
Chandrasekaran SN, Cimini BA, Goodale A, Miller L, Kost-Alimova M, Jamali N, Doench JG, Fritchman B, Skepner A, Melanson M, Kalinin AA, Arevalo J, Haghighi M, Caicedo JC, Kuhn D, Hernandez D, Berstler J, Shafqat-Abbasi H, Root DE, Swalley SE, Garg S, Singh S, Carpenter AE. Chandrasekaran SN, et al. Among authors: kalinin aa. Nat Methods. 2024 Jun;21(6):1114-1121. doi: 10.1038/s41592-024-02241-6. Epub 2024 Apr 9. Nat Methods. 2024. PMID: 38594452 Free PMC article.
Ten quick tips for deep learning in biology.
Lee BD, Gitter A, Greene CS, Raschka S, Maguire F, Titus AJ, Kessler MD, Lee AJ, Chevrette MG, Stewart PA, Britto-Borges T, Cofer EM, Yu KH, Carmona JJ, Fertig EJ, Kalinin AA, Signal B, Lengerich BJ, Triche TJ Jr, Boca SM. Lee BD, et al. Among authors: kalinin aa. PLoS Comput Biol. 2022 Mar 24;18(3):e1009803. doi: 10.1371/journal.pcbi.1009803. eCollection 2022 Mar. PLoS Comput Biol. 2022. PMID: 35324884 Free PMC article. No abstract available.
[Minimally invasive spinal surgery: stages of development].
Byvaltsev VA, Kalinin AA, Konovalov NA. Byvaltsev VA, et al. Among authors: kalinin aa. Zh Vopr Neirokhir Im N N Burdenko. 2019;83(5):92-100. doi: 10.17116/neiro20198305192. Zh Vopr Neirokhir Im N N Burdenko. 2019. PMID: 31825380 Russian.
Integrating inflammatory biomarker analysis and artificial-intelligence-enabled image-based profiling to identify drug targets for intestinal fibrosis.
Yu S, Kalinin AA, Paraskevopoulou MD, Maruggi M, Cheng J, Tang J, Icke I, Luo Y, Wei Q, Scheibe D, Hunter J, Singh S, Nguyen D, Carpenter AE, Horman SR. Yu S, et al. Among authors: kalinin aa. Cell Chem Biol. 2023 Sep 21;30(9):1169-1182.e8. doi: 10.1016/j.chembiol.2023.06.014. Epub 2023 Jul 11. Cell Chem Biol. 2023. PMID: 37437569 Free PMC article.
110 results