Publications

2012
Wählby C, Kamentsky L, Liu ZH, Riklin-Raviv T, Conery AL, O'Rourke EJ, Sokolnicki KL, Visvikis O, Ljosa V, Irazoqui JE, Golland P, Ruvkun G, Ausubel FM, Carpenter AE. An image analysis toolbox for high-throughput C. elegans assays. [Internet]. Nature Methods 9(7):714-716 2012; Publisher's Version
Unadkat HV, Hulsman M, Cornelissen K, Papenburg BJ, Truckenmüller RK, Carpenter AE, Wessling M, Post GF, Uetz M, Reinders MJT, Stamatialis D, van Blitterswijk CA, de Boer J. An algorithm-based topographical biomaterials library to instruct cell fate. [Internet]. PNAS 108(40):16565 2012; Publisher's Version
Kitami T, Logan DJ, Negri J, Hasaka T, Tolliday NJ, Carpenter AE, Spiegelman BM, Mootha VK. A chemical screen probing the relationship between mitochondrial content and cell size. [Internet]. PLoS ONE 7(3):e33755 2012; Publisher's Version
Bray MA, Fraser AN, Hasaka TP, Carpenter AE. Workflow and metrics for image quality control in large-scale high-content screens. [Internet]. Journal of Biomolecular Screening 17(2):135-143 2012; Publisher's Version
2011
Pretorius AJ, Bray MA, Carpenter AE, Ruddle R. Visualization of parameter space for image analysis [Internet]. In InfoVis 2011 (Proceedings of the 2011 IEEE Symposium on Information Visualization), 2402-11 2011; Publisher's Version
Peterson TR, Sengupta SS, Harris TE, Carmack AE, Balderas E, Guertin DA, Madden KL, Carpenter AE, Finck BN, Sabatini DM. mTOR complex 1 regulates lipin 1 localization to control the SREBP pathway [Internet]. Cell 146(3):408-420 2011; Publisher's Version
Carpenter AE. Extracting biomedically important information from large, automated imaging experiments. [Internet]. In ISBI 2011 (Proceedings of the IEEE International Symposium on Biomedical Imaging: From Nano to Macro), 1723-1726 2011; Publisher's Version PDF
Kamentsky L, Jones TR, Fraser A, Bray M, Logan D, Madden K, Ljosa V, Rueden C, Harris GB, Eliceiri K, Carpenter AE. Improved structure, function, and compatibility for CellProfiler: modular high-throughput image analysis software. [Internet]. Bioinformatics 2011 2011; Publisher's Version PDF
PMID: 21349861 PMCID: PMC3072555
Elkabets M, Gifford AM, Scheel C, Nilsson B, Reinhardt F, Bray MA, Carpenter AE, Jirström K, Magnusson K, Ebert BL, Pontén F, Weinberg RA, McAllister SS. Human tumors instigate granulin-expressing hematopoietic cells that promote malignancy by activating stromal fibroblasts in mice [Internet]. Journal of Clinical Investigation 121(2): 784-99 2011; Publisher's Version
Lindquist RA, Ottina KA, Wheeler DB, Hsu PP, Thoreen CC, Guertin DA, Siraj MA, Senguptal S, Shaul YD, Lamprecht MR, Madden KL, Papallo AR, Jones T, Sabatini DM, Carpenter AE. Genome-scale RNAi on living-cell microarrays identifies novel regulators of Drosophila melanogaster TORC1 - S6K pathway signaling. [Internet]. Genome Research 2011, 21:433-446 2011; Publisher's Version
2010
Automated tracking of yeast cell lineages.
Kim K, Rowat AC, Carpenter AE. Automated tracking of yeast cell lineages. [Internet]. Proceedings of SPIE 7798, 779823 2010; Publisher's Version
High-content screening: Practical advice, tools and resources.
Carpenter AE. High-content screening: Practical advice, tools and resources. SBS News 47:2 2010;
High-content screening: FAQs about trends, technologies, and outcomes.
Carpenter AE. High-content screening: FAQs about trends, technologies, and outcomes. SBS News 47:2 2010;
Riklin-Raviv T, Ljosa V, Conery AL, Ausubel FM, Carpenter AE, Golland P, Wählby C. Morphology-guided graph search for untangling objects: C elegans analysis [Internet]. In Medical Image Computing and Computer Assisted Intervention (MICCAI) 2010; 13(3):634-641 2010; Publisher's Version PDF
Wählby C, Riklin-Raviv T, Ljosa V, Conery AL, Golland P, Ausubel FM, Carpenter AE. Resolving clustered worms via probabilistic shape models. [Internet]. In ISBI 2010 (Proceedings of the IEEE International Symposium on Biomedical Imaging: From Nano to Macro), 552-555 2010; Publisher's Version PDF
Cataldo AM, McPhie DL, Lange NT, Punzell S, Elmiligy YNZ, Froimowitz MP, Hassinger LC, Menesale EB, Sargent LW, Logan DJ, Carpenter AE, Cohen BM. Abnormalities in Mitochondrial Structure in Cells of Patients with Bipolar Disorder [Internet]. American Journal of Pathology 177(2):575-85 2010; Publisher's Version
Logan DJ, Carpenter AE. Screening Cellular Feature Measurements for Image-based Assay Development. [Internet]. Journal of Biomolecular Screening 15(7):840-6 2010; Publisher's Version
Castoreno AB, Smurnyy Y, Torres AD, Vokes MS, Jones TR. Small molecules discovered in a pathway screen target the Rho pathway in cytokinesis [Internet]. Nature Chemical Biology 2010; Publisher's Version
Walter T, Shattuck DW, Baldock R, Bastin ME, Carpenter AE, Duce S, Ellenberg J, Fraser A, Hamilton N, Pieper S, Ragan MA, Schneider JE, Tomancak P, Hériché JK. Visualization of image data from cells to organisms. [Internet]. Nature Methods Supplement 7(3):S27-41 2010; Publisher's Version

Pages