Anne E. Carpenter

Publication Activity (10 Years)

Years Active: 2005-2024
Publications (10 Years): 24

Top Topics

Class Discrimination

Manual Labeling

Computational Biology

Top Venues

Publications

John Arevalo, Ellen Su, Anne E. Carpenter, Shantanu Singh
: A Drug-Target Interaction Graph For Inductive Link Prediction. CoRR (2024)
Srijit Seal, Ola Spjuth, Layla Hosseini-Gerami, Miguel García-Ortegón, Shantanu Singh, Andreas Bender, Anne E. Carpenter
Insights into Drug Cardiotoxicity from Biological and Chemical Data: The First Public Classifiers for FDA Drug-Induced Cardiotoxicity Rank. J. Chem. Inf. Model. 64 (4) (2024)
Gang Liu, Srijit Seal, John Arevalo, Zhenwen Liang, Anne E. Carpenter, Meng Jiang, Shantanu Singh
Learning Molecular Representation in a Cell. CoRR (2024)
Marzieh Haghighi, Mario C. Cruz, Erin Weisbart, Beth A. Cimini, Avtar Singh, Julia Bauman, Maria E. Lozada, Sanam L. Kavari, James T. Neal, Paul C. Blainey, Anne E. Carpenter, Shantanu Singh
Pseudo-Labeling Enhanced by Privileged Information and Its Application to In Situ Sequencing Images. CoRR (2023)
Marzieh Haghighi, Mario C. Cruz, Erin Weisbart, Beth A. Cimini, Avtar Singh, Julia Bauman, Maria E. Lozada, Sanam L. Kavari, James T. Neal, Paul C. Blainey, Anne E. Carpenter, Shantanu Singh
Pseudo-Labeling Enhanced by Privileged Information and Its Application to In Situ Sequencing Images. IJCAI (2023)
Yuen Ler Chow, Shantanu Singh, Anne E. Carpenter, Gregory P. Way
Predicting drug polypharmacology from cell morphology readouts using variational autoencoder latent space arithmetic. PLoS Comput. Biol. 18 (2) (2022)
David R. Stirling, Madison J. Swain-Bowden, Alice M. Lucas, Anne E. Carpenter, Beth A. Cimini, Allen Goodman
CellProfiler 4: improvements in speed, utility and usability. BMC Bioinform. 22 (1) (2021)
Florian Levet, Anne E. Carpenter, Kevin W. Eliceiri, Anna Kreshuk, Peter Bankhead, Robert Haase
Developing open-source software for bioimage analysis: opportunities and challenges. F1000Research 10 (2021)
David R. Stirling, Anne E. Carpenter, Beth A. Cimini
CellProfiler Analyst 3.0: accessible data exploration and machine learning for image analysis. Bioinform. 37 (21) (2021)
Anne E. Carpenter, Casey S. Greene, Piero Carnici, Benilton S. Carvalho, Michiel de Hoon, Stacey Finley, Kim-Anh Le Cao, Jerry S. H. Lee, Luigi Marchionni, Suzanne Sindi, Fabian J. Theis, Gregory P. Way, Jean Y. H. Yang, Elana J. Fertig
A field guide to cultivating computational biology. CoRR (2021)
Jane Hung, Allen Goodman, Deepali Ravel, Stefanie Lopes, Gabriel Rangel, Odailton A. Nery, Benoit Malleret, Francois Nosten, Marcus V. G. Lacerda, Marcelo U. Ferreira, Laurent Rénia, Manoj Duraisingh, Fabio T. M. Costa, Matthias Marti, Anne E. Carpenter
Keras R-CNN: library for cell detection in biological images using deep neural networks. BMC Bioinform. 21 (1) (2020)
Anne E. Carpenter
Bridging Domain and Data. Patterns 1 (4) (2020)
Maxime W. Lafarge, Juan C. Caicedo, Anne E. Carpenter, Josien P. W. Pluim, Shantanu Singh, Mitko Veta
Capturing Single-Cell Phenotypic Variation via Unsupervised Representation Learning. MIDL (2019)
Victor Kulikov, Syuan-Ming Guo, Matthew Stone, Allen Goodman, Anne E. Carpenter, Mark Bathe, Victor S. Lempitsky
DoGNet: A deep architecture for synapse detection in multiplexed fluorescence images. PLoS Comput. Biol. 15 (5) (2019)
Tim Becker, Juan C. Caicedo, Shantanu Singh, Markus Weckmann, Anne E. Carpenter
Combining morphological and migration profiles of in vitro time-lapse data. ISBI (2018)
Juan C. Caicedo, Claire McQuin, Allen Goodman, Shantanu Singh, Anne E. Carpenter
Weakly Supervised Learning of Single-Cell Feature Embeddings. CVPR (2018)
Jane Hung, Allen Goodman, Stefanie Lopes, Gabriel Rangel, Deepali Ravel, Fabio T. M. Costa, Manoj Duraisingh, Matthias Marti, Anne E. Carpenter
Applying Faster R-CNN for Object Detection on Malaria Images. CoRR (2018)
Jane Hung, Anne E. Carpenter
Applying Faster R-CNN for Object Detection on Malaria Images. CVPR Workshops (2017)
Cleber C. Melo-Filho, Rafael F. Dantas, Rodolpho C. Braga, Bruno J. Neves, Mario R. Senger, Walter C. G. Valente, João M. Rezende-Neto, Willian T. Chaves, Eugene N. Muratov, Ross A. Paveley, Nicholas Furnham, Lee Kamentsky, Anne E. Carpenter, Floriano Silva-Junior, Carolina Horta Andrade
. J. Chem. Inf. Model. 56 (7) (2016)
David Dao, Adam Fraser, Jane Hung, Vebjorn Ljosa, Shantanu Singh, Anne E. Carpenter
CellProfiler Analyst: interactive data exploration, analysis and classification of large biological image sets. Bioinform. 32 (20) (2016)
Virginie Uhlmann, Shantanu Singh, Anne E. Carpenter
CP-CHARM: segmentation-free image classification made accessible. BMC Bioinform. 17 (2016)
Mark-Anthony Bray, Anne E. Carpenter
CellProfiler Tracer: exploring and validating high-throughput, time-lapse microscopy image data. BMC Bioinform. 16 (2015)
Topaz Gilad, Mark-Anthony Bray, Anne E. Carpenter, Tammy Riklin Raviv
Symmetry-based mitosis detection in time-lapse microscopy. ISBI (2015)
Assaf Arbelle, N. Drayman, Mark-Anthony Bray, U. Alon, Anne E. Carpenter, Tammy Riklin Raviv
Analysis of High-throughput Microscopy Videos: Catching Up with Cell Dynamics. MICCAI (3) (2015)
Imtiaz A. Khan, Adam Fraser, Mark-Anthony Bray, Paul J. Smith, Nick S. White, Anne E. Carpenter, Rachel J. Errington
ProtocolNavigator: emulation-based software for the design, documentation and reproduction biological experiments. Bioinform. 30 (23) (2014)
A. Johannes Pretorius, Mark-Anthony Bray, Anne E. Carpenter, Roy A. Ruddle
Visualization of Parameter Space for Image Analysis. IEEE Trans. Vis. Comput. Graph. 17 (12) (2011)
Lee Kamentsky, Thouis R. Jones, Adam Fraser, Mark-Anthony Bray, David J. Logan, Katherine L. Madden, Vebjorn Ljosa, Curtis Rueden, Kevin W. Eliceiri, Anne E. Carpenter
Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software. Bioinform. 27 (8) (2011)
Anne E. Carpenter
Extracting biomedically important information from large, automated imaging experiments. ISBI (2011)
Mayank Kabra, Annie L. Conery, Eyleen J. O'Rourke, Xin Xie, Vebjorn Ljosa, Thouis R. Jones, Frederick M. Ausubel, Gary Ruvkun, Anne E. Carpenter, Yoav Freund
Towards automated high-throughput screening of C. elegans on agar CoRR (2010)
Tammy Riklin Raviv, Vebjorn Ljosa, Annie L. Conery, Frederick M. Ausubel, Anne E. Carpenter, Polina Golland, Carolina Wählby
Analysis. MICCAI (3) (2010)
Carolina Wählby, Tammy Riklin-Raviv, Vebjorn Ljosa, Annie L. Conery, Polina Golland, Frederick M. Ausubel, Anne E. Carpenter
Resolving clustered worms via probabilistic shape models. ISBI (2010)
Björn Nilsson, Mikael Johansson, Fátima Al-Shahrour, Anne E. Carpenter, Benjamin L. Ebert
Ultrasome: efficient aberration caller for copy number studies of ultra-high resolution. Bioinform. 25 (8) (2009)
Vebjorn Ljosa, Anne E. Carpenter
Introduction to the Quantitative Analysis of Two-Dimensional Fluorescence Microscopy Images for Cell-Based Screening. PLoS Comput. Biol. 5 (12) (2009)
Thouis R. Jones, In Han Kang, Douglas B. Wheeler, Robert A. Lindquist, Adam Papallo, David M. Sabatini, Polina Golland, Anne E. Carpenter
CellProfiler Analyst: data exploration and analysis software for complex image-based screens. BMC Bioinform. 9 (2008)
Thouis R. Jones, Anne E. Carpenter, Polina Golland
Voronoi-Based Segmentation of Cells on Image Manifolds. CVBIA (2005)