Publications

2009
Moy TI, Conery AL, Larkins-Ford J, Wu G, Mazitschek R, Casadei G, Lewis K, Carpenter AE, and Ausubel FM. 2009. “High throughput screen for novel antimicrobials using a whole animal infection model.” ACS Chemical Biology 4. Publisher's Version
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Tsui M, Xie T, Orth JD, Carpenter AE, Rudnicki S, Kim S, Shamu CE, and Mitchison TJ. 2009. “An intermittent live cell imaging screen for siRNA enhancers and suppressors of a kinesin-5 inhibitor.” PLoS ONE 4(10):e7339. Publisher's Version
2008
Ljosa V and Carpenter AE. 2008. “High-throughput screens for fluorescent dye discovery.” Trends in Biotechnology 10:527-30. Publisher's Version
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Vokes MS and Carpenter AE. 2008. “Using CellProfiler for automatic identification and measurement of biological objects in images. In: Ausubel, FM et al., eds.” In Current Protocols in Molecular Biology 82:14.17.1-14.17.12.
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Jones TR, Kang IH, Wheeler DB, Lindquist RA, Papallo A, Sabatini DM, Golland P, and Carpenter AE. 2008. “CellProfiler Analyst: data exploration and analysis software for complex image-based screens.” BMC Bioinformatics 9(1):482. Publisher's Version
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CellProfiler: Open-source software to automatically quantify images
Vokes MS and Carpenter AE. 2008. “CellProfiler: Open-source software to automatically quantify images.” Microscopy Today 16(5):38-39.
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Jones TR, Carpenter AE, Golland P, and Sabatini DM. 2008. “Methods for high-content, high throughput image-based cell screening.” In Microscopic Image Analysis for Life Science Applications. , edited by Rittscher J, Machiraju R, and Wong STC, Pp. 209-221. Norwood, MA: Artech House.
Pan H, Yu J, Zhang L, Carpenter AE, Zhu, H, Li L, Ma D, and Yuan J. 2008. “A novel small molecule regulator of guanine nucleotide exchange activity of ARF and golgi membrane trafficking.” Journal of Biological Chemistry 283(45):31087-9. Publisher's Version
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2007
Carpenter AE. 2007. “Image-based chemical screening.” Nature Chemical Biology. 3:461-465. NatChemBiology link
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Lamprecht MR, Sabatini DM, and Carpenter AE. 2007. “CellProfiler: free, versatile software for automated biological image analysis.” Biotechniques. 42(1):71-75.
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Carpenter AE. 2007. “Extracting rich information from images. In: Clemons PA et al., eds. Cell-Based Assays for High-Throughput Screening.” In Methods in Molecular Biology, 14th ed., 486: Pp. 193-211. New York, NY: Humana Press.
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Flexible Image Analysis
Jones TR and Carpenter AE. 2007. “Flexible Image Analysis.” Biophotonics Journal. 14(7):31-32.
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Software opens the door to quantitative imaging.
Carpenter AE. 2007. “Software opens the door to quantitative imaging.” Nature Methods. 4(2):120-1.
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2006
Carpenter AE, Jones TR, Lamprecht MR, Clarke C, Kang IH, Friman O, Guertin DA, Chang JH, Lindquist RA, Moffat J, Golland P, and Sabatini DM. 2006. “CellProfiler: image analysis software for identifying and quantifying cell phenotypes.” Genome Biology, 7:R100. Publisher's Version
Cowen LE, Carpenter AE, Matangkasombut O, Fink GR, and Lindquist S. 2006. “Genetic architecture of Hsp90-dependent drug resistance.” Eukaryotic Cell. 5(12):2184-8. Publisher's Version
Baltus AE, Menke DB, Hu YC, Goodheart ML, Carpenter AE, Rooij de DG, and Page DC. 2006. “In germ cells of mouse embryonic ovaries, the decision to enter meiosis precedes premeiotic DNA replication.” Nature Genetics. 38(12):1430_1434.
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Moffat J, Grueneberg DA, Yang X, Kim SY, Kloepfer AM, Hinkle G, Piqani B, Eisenhaure TM, Luo B, Grenier JK, Carpenter AE, Foo SY, Stewart SA, Stockwell BR, Hacohen N, Hahn WC, Lander ES, Sabatini DM, and Root DE. 2006. “A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen.” Cell, 124(6):1283-98. Publisher's Version
Chuang CH, Carpenter AE, Fuchsova B, Johnson T, Lanerolle de P, and Belmont AS. 2006. “Long-Range Directional Movement of an Interphase Chromosome Site.” Current Biology, 16:1-7 . Publisher's Version
Bailey SN, Ali SM, Carpenter AE, Higgins CO, and Sabatini DM. 2006. “Microarrays of lentiviruses for gene function screens in immortalized and primary cells.” Nature Methods, 3(2):117-22.
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