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2017 2
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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. 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.
FALCON systematically interrogates free fatty acid biology and identifies a novel mediator of lipotoxicity.
Wieder N, Fried JC, Kim C, Sidhom EH, Brown MR, Marshall JL, Arevalo C, Dvela-Levitt M, Kost-Alimova M, Sieber J, Gabriel KR, Pacheco J, Clish C, Abbasi HS, Singh S, Rutter JC, Therrien M, Yoon H, Lai ZW, Baublis A, Subramanian R, Devkota R, Small J, Sreekanth V, Han M, Lim D, Carpenter AE, Flannick J, Finucane H, Haigis MC, Claussnitzer M, Sheu E, Stevens B, Wagner BK, Choudhary A, Shaw JL, Pablo JL, Greka A. Wieder N, et al. Cell Metab. 2023 May 2;35(5):887-905.e11. doi: 10.1016/j.cmet.2023.03.018. Epub 2023 Apr 18. Cell Metab. 2023. PMID: 37075753 Free PMC article.
Imaging flow cytometry: a primer.
Rees P, Summers HD, Filby A, Carpenter AE, Doan M. Rees P, et al. Nat Rev Methods Primers. 2022;2:86. doi: 10.1038/s43586-022-00167-x. Epub 2022 Nov 3. Nat Rev Methods Primers. 2022. PMID: 37655209 Free PMC article.
Pervasive mislocalization of pathogenic coding variants underlying human disorders.
Lacoste J, Haghighi M, Haider S, Lin ZY, Segal D, Reno C, Qian WW, Xiong X, Shafqat-Abbasi H, Ryder PV, Senft R, Cimini BA, Roth FP, Calderwood M, Hill D, Vidal M, Yi SS, Sahni N, Peng J, Gingras AC, Singh S, Carpenter AE, Taipale M. Lacoste J, et al. bioRxiv [Preprint]. 2023 Sep 5:2023.09.05.556368. doi: 10.1101/2023.09.05.556368. bioRxiv. 2023. Update in: Cell. 2024 Sep 25:S0092-8674(24)01021-3. doi: 10.1016/j.cell.2024.09.003. PMID: 37732209 Free PMC article. Updated. Preprint.
Learning Molecular Representation in a Cell.
Liu G, Seal S, Arevalo J, Liang Z, Carpenter AE, Jiang M, Singh S. Liu G, et al. ArXiv [Preprint]. 2024 Oct 2:arXiv:2406.12056v3. ArXiv. 2024. PMID: 38947938 Free PMC article. Preprint.
Reference compounds for characterizing cellular injury in high-content cellular morphology assays.
Dahlin JL, Hua BK, Zucconi BE, Nelson SD Jr, Singh S, Carpenter AE, Shrimp JH, Lima-Fernandes E, Wawer MJ, Chung LPW, Agrawal A, O'Reilly M, Barsyte-Lovejoy D, Szewczyk M, Li F, Lak P, Cuellar M, Cole PA, Meier JL, Thomas T, Baell JB, Brown PJ, Walters MA, Clemons PA, Schreiber SL, Wagner BK. Dahlin JL, et al. Nat Commun. 2023 Mar 13;14(1):1364. doi: 10.1038/s41467-023-36829-x. Nat Commun. 2023. PMID: 36914634 Free PMC article.
Learning representations for image-based profiling of perturbations.
Moshkov N, Bornholdt M, Benoit S, Smith M, McQuin C, Goodman A, Senft RA, Han Y, Babadi M, Horvath P, Cimini BA, Carpenter AE, Singh S, Caicedo JC. Moshkov N, et al. Nat Commun. 2024 Feb 21;15(1):1594. doi: 10.1038/s41467-024-45999-1. Nat Commun. 2024. PMID: 38383513 Free PMC article.
77 results