Publications by Year: 2016

Pawlowski N, Caicedo JC, Singh S, Carpenter AE, Storkey A. Automating Morphological Profiling with Generic Deep Convolutional Networks. [Internet]. 2016; Publisher's Version
Meijering E, Carpenter AE, Peng H, Hamprecht F, Olivo-Marin JC. Imagining the future of bioimage analysis. [Internet]. Nature Biotechnology. 34(12)1250-55 2016; Publisher's Version
Bray MA, Singh S, Han H, Davis CT, Borgeson B, Hartland C, Kost-Alimova M, Gustafsdottir SM, Gibson CC, Carpenter AE. Cell Painting, a high-content image-based assay for morphological profiling using multiplexed fluorescent dyes. [Internet]. Nature Protocols. 11(9):1757-74 2016; Publisher's Version
Goodman A, Carpenter AE. High-Throughput, Automated Image Processing for Large-Scale Fluorescence Microscopy Experiments. [Internet]. Microscopy and Microanalysis. 22(S3):538–539 2016; Publisher's Version
Melo-Filho CC, Dantas RF, Braga RC, Neves BJ, Senger MR, Valente WC, Rezende-Neto JM, Chaves WT, Muratov EN, Paveley RA, Furnham N, Kamentsky L, Carpenter AE, Silva-Junior FP, Andrade CH. QSAR-Driven Discovery of Novel Chemical Scaffolds Active against Schistosoma mansoni. [Internet]. Journal of Chemical Information and Modeling. 56(7):1357-72 2016; Publisher's Version
Dao D, Fraser AN, Hung J, Ljosa V, Singh S, Carpenter AE. CellProfiler Analyst: interactive data exploration, analysis and classification of large biological image sets [Internet]. Bioinformatics. 32(20):3210-3212 2016; Publisher's Version
Shan J, Logan DJ, Root DE, Carpenter AE, Bhatia SN. High-Throughput Platform for Identifying Molecular Factors Involved in Phenotypic Stabilization of Primary Human Hepatocytes In Vitro. [Internet]. Journal of Biomolecular Screening. 21(9):897-911 2016; Publisher's Version
Neves BJ, Dantas RF, Senger MR, Goes Valente WC, de Mello Rezende-Neto J, Chaves WT, Kamentsky L, Carpenter AE, Silva-Jr FP, Andrade CH. The Antidepressant Drug Paroxetine as a New Lead Candidate in Schistosome Drug Discovery [Internet]. MedChemComm 2016; Publisher's Version
Dordea AC, Bray MA, Allen K, Logan D, Fei F, Malhotra R, Gregory M, Carpenter AE, Buys ES. An open-source computational tool to automatically quantify immunolabeled retinal ganglion cells. [Internet]. Experimental Eye Research 2016; Publisher's Version
Caicedo JC, Singh S, Carpenter AE. Applications in image-based profiling of perturbations. [Internet]. Current Opinion in Biotechnology 39:134-142 2016; Publisher's Version
Uhlmann V, Singh S, Carpenter AE. CP-CHARM: segmentation-free image classification made accessible [Internet]. BMC Bioinformatics 2016;17(1):51. Publisher's Version
Blasi T, Hennig H, Summers HD, Theis FJ, Cerveira J, Patterson JO, Davies D, Filby A, Carpenter AE, Rees P. Label-free cell cycle analysis for high-throughput imaging flow cytometry [Internet]. Nat Commun 7:10256 2016; Publisher's Version
Jolly AL, Luan CH, Dusel BE, Dunne SF, Winding M, Dixit VJ, Robins C, Saluk JL, Logan DJ, Carpenter AE, Sharma M, Dean D, Cohen AR, Gelfand VI. A Genome-wide RNAi screen for microtubule network formation and lysosome motility regulation in Drosophila S2 cells [Internet]. Cell Reports 14(3):611-20 2016; Publisher's Version
Berger AH, Brooks AN, Wu X, Shrestha Y, Chouinard C, Piccioni F, Bagul M, Kamburov A, Imielinski M, Hogstrom L, Zhu C, Yang X, Pantel S, Sakai R, Watson J, Kaplan N, Campbell JD, Singh S, Root DE, Narayan R, Natoli T, Lahr DL, Tirosh I, Tamayo P, Getz G, Wong B, Doench J, Subramanian A, Golub TR, Meyerson M, Boehm JS. High-throughput Phenotyping of Lung Cancer Somatic Mutations. [Internet]. Cancer Cell, 30(2):214-28 2016; Publisher's Version