Publications by Year: 2018

Becker T, Caicedo JC, Singh S, Weckmann M, and Carpenter AE. 2018. “Combining morphological and migration profiles of in vitro time-lapse data.” In 2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018), Pp. 965–968.
Goldsborough P, Pawlowski N, Caicedo JC, Singh S, and Carpenter AE. 2018. “CytoGAN: Generative Modeling of Cell Images”. Publisher's Version
Vasilevich AS, Mourcin F, Mentink A, Hulshof F, Beijer N, Zhao Y, Levers M, Papenburg B, Singh S, Carpenter AE, Stamatialis D, Blitterswijk van C, Tarte K, and Boer de J. 2018. “Designed Surface Topographies Control ICAM-1 Expression in Tonsil-Derived Human Stromal Cells.” Front Bioeng Biotechnol. 6:87. Publisher's Version
Doan M, Vorobjev I, Rees P, Filby A, Wolkenhauer O, Goldfeld AE, Lieberman J, Barteneva N, Carpenter AE, and Hennig H. 2018. “Diagnostic Potential of Imaging Flow Cytometry.” Trends Biotechnol 112:39-45. Publisher's Version
Simm J, Klambauer G, Arany A, Steijaert M, Wegner JK, Gustin E, Chupakhin V, Chong YT, Vialard J, Buijnsters P, Velter I, Vapirev A, Singh S, Carpenter AE, Wuyts R, Hochreiter S, Moreau, and Ceulemans H. 2018. “Repurposed High-Throughput Images Enable Biological Activity Prediction For Drug Discovery.” Cell Chem Biol. Publisher's Version
Caicedo JC, McQuin C, Goodman A, Singh S, and Carpenter AE. 2018. “Weakly supervised learning of single-cell feature embeddings.” In 2018 IEEE Conference on Computer Vision and Pattern Recognition (CVPR) bioRxiv, Pp. 293431. Publisher's Version
Yang SJ, Berndl M, Michael Ando D, Barch M, Narayanaswamy A, Christiansen E, Hoyer S, Roat C, Hung J, Rueden CT, Shankar A, Finkbeiner S, and Nelson P. 2018. “Assessing microscope image focus quality with deep learning.” BMC Bioinformatics 19(1):28962. Publisher's Version
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, and Carpenter AE. 2018. “CellProfiler 3.0: Next-generation image processing for biology.” PLoS Biol. 16(7):e2005970. Publisher's Version
Ching T, Himmelstein DS, Beaulieu-Jones BK, Kalinin AA, Do BT, Way GP, Ferrero E, Agapow P-M, 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, and Greene CS. 2018. “Opportunities and obstacles for deep learning in biology and medicine.” J R Soc Interface 15(141). Publisher's Version