Bridging Domain and Data

by Anne E. Carpenter
Published 2020-07-01

Introduction to the quantitative analysis of two-dimensional fluorescence microscopy images for cell-based screening.

by Vebjorn Ljosa, Anne E Carpenter
Published 2009-12-01

Capturing single-cell heterogeneity via data fusion improves image-based profiling

by Mohammad H. Rohban, Hamdah S. Abbasi, Shantanu Singh, Anne E. Carpenter
Published 2019-05-01

Developing open-source software for bioimage analysis: opportunities and challenges [version 1; peer review: 2 approved]

by Florian Levet, Anne E. Carpenter, Kevin W. Eliceiri, Anna Kreshuk, Peter Bankhead, Robert Haase
Published 2021-04-01

CellProfiler 4: improvements in speed, utility and usability

by David R. Stirling, Madison J. Swain-Bowden, Alice M. Lucas, Anne E. Carpenter, Beth A. Cimini, Allen Goodman
Published 2021-09-01

Scientific Community Image Forum: A discussion forum for scientific image software.

by Curtis T Rueden, Jeanelle Ackerman, Ellen T Arena, Jan Eglinger, Beth A Cimini, Allen Goodman, Anne E Carpenter, Kevin W Eliceiri
Published 2019-06-01

Reconstructing cell cycle and disease progression using deep learning

by Philipp Eulenberg, Niklas Köhler, Thomas Blasi, Andrew Filby, Anne E. Carpenter, Paul Rees, Fabian J. Theis, F. Alexander Wolf
Published 2017-09-01

Resolving cell state in iPSC-derived human neural samples with multiplexed fluorescence imaging

by Martin L. Tomov, Alison O’Neil, Hamdah S. Abbasi, Beth A. Cimini, Anne E. Carpenter, Lee L. Rubin, Mark Bathe
Published 2021-06-01

An intermittent live cell imaging screen for siRNA enhancers and suppressors of a kinesin-5 inhibitor.

by Melody Tsui, Tiao Xie, James D Orth, Anne E Carpenter, Stewart Rudnicki, Suejong Kim, Caroline E Shamu, Timothy J Mitchison
Published 2009-10-01

A chemical screen probing the relationship between mitochondrial content and cell size.

by Toshimori Kitami, David J Logan, Joseph Negri, Thomas Hasaka, Nicola J Tolliday, Anne E Carpenter, Bruce M Spiegelman, Vamsi K Mootha
Published 2012-01-01

Systematic morphological profiling of human gene and allele function via Cell Painting

by Mohammad Hossein Rohban, Shantanu Singh, Xiaoyun Wu, Julia B Berthet, Mark-Anthony Bray, Yashaswi Shrestha, Xaralabos Varelas, Jesse S Boehm, Anne E Carpenter
Published 2017-03-01

High content image analysis identifies novel regulators of synaptogenesis in a high-throughput RNAi screen of primary neurons.

by Thomas J F Nieland, David J Logan, Jessica Saulnier, Daniel Lam, Caroline Johnson, David E Root, Anne E Carpenter, Bernardo L Sabatini
Published 2014-01-01

Morphological Profiles of RNAi-Induced Gene Knockdown Are Highly Reproducible but Dominated by Seed Effects.

by Shantanu Singh, Xiaoyun Wu, Vebjorn Ljosa, Mark-Anthony Bray, Federica Piccioni, David E Root, John G Doench, Jesse S Boehm, Anne E Carpenter
Published 2015-01-01

Label-free cell cycle analysis for high-throughput imaging flow cytometry

by Thomas Blasi, Holger Hennig, Huw D. Summers, Fabian J. Theis, Joana Cerveira, James O. Patterson, Derek Davies, Andrew Filby, Anne E. Carpenter, Paul Rees
Published 2016-01-01

Identification of host-targeted small molecules that restrict intracellular Mycobacterium tuberculosis growth.

by Sarah A Stanley, Amy K Barczak, Melanie R Silvis, Samantha S Luo, Kimberly Sogi, Martha Vokes, Mark-Anthony Bray, Anne E Carpenter, Christopher B Moore, Noman Siddiqi, Eric J Rubin, Deborah T Hung
Published 2014-02-01

Designed Surface Topographies Control ICAM-1 Expression in Tonsil-Derived Human Stromal Cells

by Aliaksei S. Vasilevich, Frédéric Mourcin, Anouk Mentink, Frits Hulshof, Nick Beijer, Yiping Zhao, Marloes Levers, Bernke Papenburg, Shantanu Singh, Anne E. Carpenter, Dimitrios Stamatialis, Clemens van Blitterswijk, Karin Tarte, Jan de Boer
Published 2018-06-01

CellProfiler 3.0: Next-generation image processing for biology.

by Claire McQuin, Allen Goodman, Vasiliy Chernyshev, Lee Kamentsky, Beth A Cimini, Kyle W Karhohs, Minh Doan, Liya Ding, Susanne M Rafelski, Derek Thirstrup, Winfried Wiegraebe, Shantanu Singh, Tim Becker, Juan C Caicedo, Anne E Carpenter
Published 2018-07-01

Multiplex cytological profiling assay to measure diverse cellular states.

by Sigrun M Gustafsdottir, Vebjorn Ljosa, Katherine L Sokolnicki, J Anthony Wilson, Deepika Walpita, Melissa M Kemp, Kathleen Petri Seiler, Hyman A Carrel, Todd R Golub, Stuart L Schreiber, Paul A Clemons, Anne E Carpenter, Alykhan F Shamji
Published 2013-01-01

A Genome-wide RNAi Screen for Microtubule Bundle Formation and Lysosome Motility Regulation in Drosophila S2 Cells

by Amber L. Jolly, Chi-Hao Luan, Brendon E. Dusel, Sara F. Dunne, Michael Winding, Vishrut J. Dixit, Chloe Robins, Jennifer L. Saluk, David J. Logan, Anne E. Carpenter, Manu Sharma, Deborah Dean, Andrew R. Cohen, Vladimir I. Gelfand
Published 2016-01-01

Keras R-CNN: library for cell detection in biological images using deep neural networks

by Jane Hung, Allen Goodman, Deepali Ravel, Stefanie C. P. Lopes, Gabriel W. Rangel, Odailton A. Nery, Benoit Malleret, Francois Nosten, Marcus V. G. Lacerda, Marcelo U. Ferreira, Laurent Rénia, Manoj T. Duraisingh, Fabio T. M. Costa, Matthias Marti, Anne E. Carpenter
Published 2020-07-01