Anne E. Carpenter

The Broad Institute 
"Anne Carpenter"


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Andrew Belmont grad student 1997-2003 UIUC
 (Effects of transcriptional activators on large-scale chromatin structure.)
David M. Sabatini post-doc Whitehead Institute for Biomedical Research (MIT)


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Björn Nillson post-doc 2008- The Broad Institute
Juan Carlos Caicedo Rueda post-doc 2016-
Minh Doan post-doc 2016-
Tim Becker post-doc 2017-
Hamdah Shafqat Abbasi post-doc 2018-
Imtiaz Khan post-doc 2010-2012 The Broad Institute
Tammy Riklin-Raviv post-doc 2010-2012 The Broad Institute
AJ (Hannes) Pretorius post-doc 2010-2013 The Broad Institute
Shantanu Singh post-doc 2011-2014 The Broad Institute
Holger Hennig post-doc 2013-2014 The Broad Institute
Kyle Karhohs post-doc 2016-2018
David J. Logan research scientist (Neurotree)
Allen Goodman research scientist 2015-
Beth E Cimini research scientist 2016-
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Rohban MH, Abbasi HS, Singh S, et al. (2019) Capturing single-cell heterogeneity via data fusion improves image-based profiling. Nature Communications. 10: 2082
Doan M, Carpenter AE. (2019) Leveraging machine vision in cell-based diagnostics to do more with less. Nature Materials. 18: 414-418
Caicedo JC, McQuin C, Goodman A, et al. (2018) Weakly Supervised Learning of Single-Cell Feature Embeddings. Proceedings. Ieee Computer Society Conference On Computer Vision and Pattern Recognition. 2018: 9309-9318
Vasilevich AS, Mourcin F, Mentink A, et al. (2018) Designed Surface Topographies Control ICAM-1 Expression in Tonsil-Derived Human Stromal Cells. Frontiers in Bioengineering and Biotechnology. 6: 87
McQuin C, Goodman A, Chernyshev V, et al. (2018) CellProfiler 3.0: Next-generation image processing for biology. Plos Biology. 16: e2005970
Simm J, Klambauer G, Arany A, et al. (2018) Repurposing High-Throughput Image Assays Enables Biological Activity Prediction for Drug Discovery. Cell Chemical Biology
Doan M, Vorobjev I, Rees P, et al. (2018) Diagnostic Potential of Imaging Flow Cytometry. Trends in Biotechnology
Bray MA, Carpenter AE. (2018) Quality Control for High-Throughput Imaging Experiments Using Machine Learning in Cellprofiler. Methods in Molecular Biology (Clifton, N.J.). 1683: 89-112
Caicedo JC, Cooper S, Heigwer F, et al. (2017) Data-analysis strategies for image-based cell profiling. Nature Methods. 14: 849-863
Hulshof FFB, Papenburg B, Vasilevich A, et al. (2017) Mining for osteogenic surface topographies: In silico design to in vivo osseo-integration. Biomaterials. 137: 49-60
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