CellProfiler was first published in 2006 and has been cited in 601 articles (partial 2012 data available, last updated January 22, 2013).

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How to cite CellProfiler References sorted by alphabet References sorted by senior author

CellProfiler-citing publications, sorted by senior author

Abdel Azim, Adel (1 publication)

Helmy I and Abdel Azim A (2012) Efficacy of ImageJ in the assessment of apoptosis. Diagnostic Pathology 7(1):15. PMID: 22309648. Available at http://www.ncbi.nlm.nih.gov/pubmed/22309648

Aderem, Alan (1 publication)

Gold ES, Ramsey SA, Sartain MJ, Selinummi J, Podolsky I, Rodriguez DJ, Moritz RL and Aderem A (2012) ATF3 protects against atherosclerosis by suppressing 25-hydroxycholesterol-induced lipid body formation. Journal of Experimental Medicine 209(4):807-817. PMID: 22473958. Available at http://jem.rupress.org/content/209/4/807

Ahmed, Sohail (3 publications)

Yu W, Lee H, Hariharan S, Bu W and Ahmed S (2008) Level Set Segmentation of Cellular Images Based on Topological Dependence. Advances in Visual Computing:540-551. PMID: none. Available at http://dx.doi.org/10.1007/978-3-540-89639-5_52

Yu W, Lee HK, Hariharan S, Bu W and Ahmed S (2008) Quantitative neurite outgrowth measurement based on image segmentation with topological dependence. Cytometry Part A. PMID: 18951464. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18951464

Yu W, Lee HK, Hariharan S, Bu W and Ahmed S (2010) Evolving generalized Voronoi diagrams for accurate cellular image segmentation. Cytometry Part A 77(4):379-86. PMID: 20169588. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=20169588

Ahringer, Julie (1 publication)

Boutros M and Ahringer J (2008) The art and design of genetic screens: RNA interference. Nature Reviews in Genetics 9(7):554-66. PMID: 18521077. Available at http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=18521077

Aitchison, John (1 publication)

Saleem RA and Aitchison JD (2010) Systems cell biology of the mitotic spindle. Journal of Cell Biology 188(1):7-9. PMID: 20065087. Available at http://www.ncbi.nlm.nih.gov/pubmed/20065087

Akiyama, Yutaka (1 publication)

Tominaga D, Iguchi F, Horimoto K and Akiyama Y (2007) High-throughput Automated Image Processing System for Cell Array Observations. IPSJ Digital Courier 3:728-735. PMID: none. Available at http://www.ipsj.or.jp/08editt/dc/data/vol_03.html

Alam, Mohammad Jahangir (1 publication)

Alam MJ (2012) Open source software, Benefits in the Economy of Bangladesh. International Journal of Computer Applications 42(18):21-24. PMID: none. Available at http://research.ijcaonline.org/volume42/number18/pxc3878099.pdf

Albeck, John G. (1 publication)

Worster DT, Schmelzle T, Solimini NL, Lightcap ES, Millard B, Mills GB, Brugge JS and Albeck JG (2012) Akt and ERK Control the Proliferative Response of Mammary Epithelial Cells to the Growth Factors IGF-1 and EGF Through the Cell Cycle Inhibitor p57Kip2. Science Signaling 5(214):ra19-. PMID: 22394561. Available at http://www.ncbi.nlm.nih.gov/pubmed/22394561

Alcalay, Myriam (1 publication)

Licciulli S, Luise C, Zanardi A, Giorgetti L, Viale G, Lanfrancone L, Carbone R and Alcalay M (2010) Pirin delocalization in melanoma progression identified by high content immuno-detection based approaches. BMC Cell Biology 11(1):5. PMID: 20089166. Available at http://www.ncbi.nlm.nih.gov/pubmed/20089166

Alon, Uri (1 publication)

Sigal A, Milo R, Cohen A, Geva-Zatorsky N, Klein Y, Alaluf I, Swerdlin N, Perzov N, Danon T, Liron Y, Raveh T, Carpenter AE, Lahav G and Alon U (2006) Dynamic proteomics in individual human cells uncovers widespread cell-cycle dependence of nuclear proteins. Nature Methods 3(7):525-31. PMID: 16791210. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16791210

Altschuler, Steven J. (1 publication)

Rajaram S, Pavie B, Wu LF and Altschuler SJ (2012) PhenoRipper: software for rapidly profiling microscopy images. Nature Methods 9(7):635-637. PMID: 22743764. Available at http://dx.doi.org/10.1038/nmeth.2097

Alvarez, Diego F. (1 publication)

Leavesley SJ, Annamdevula N, Boni J, Stocker S, Grant K, Troyanovsky B, Rich TC and Alvarez DF (2012) Hyperspectral imaging microscopy for identification and quantitative analysis of fluorescently-labeled cells in highly autofluorescent tissue. Journal of Biophotonics. PMID: 21987373. Available at http://onlinelibrary.wiley.com/doi/10.1002/jbio.201100066/abstract

Andreadis, Stelios (2 publications)

Tian J, Alimperti S, Lei P and Andreadis ST (2010) Lentiviral microarrays for real-time monitoring of gene expression dynamics. Lab on a Chip 10(15):1967-1975. PMID: 20520864. Available at http://www.ncbi.nlm.nih.gov/pubmed/20520864

Alimperti S, Lei P, Tian J and Andreadis ST (2012) A novel lentivirus for quantitative assessment of gene knockdown in stem cell differentiation. Gene Therapy. PMID: 22241174. Available at http://www.ncbi.nlm.nih.gov/pubmed/22241174

Andrews, Brenda (2 publications)

Vizeacoumar FJ, Chong Y, Boone C and Andrews BJ (2009) A picture is worth a thousand words: Genomics to phenomics in the yeast Saccharomyces cerevisiae. FEBS Letters. PMID: 19351535. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19351535

Chong YT, Cox MJ and Andrews B (2012) Proteome-Wide Screens in Saccharomyces cerevisiae Using the Yeast GFP Collection. Advances in Systems Biology 736:169-178. PMID: 22161327. Available at http://www.springerlink.com/content/q3t997272j041117/

Angres, Brigitte (1 publication)

Angres B (2005) Cell microarrays. Expert Review of Molecular Diagnostics 5(5):769-79. PMID: 16149879. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16149879

Aparicio, Samuel (1 publication)

Poon SS, Wong JT, Saunders DN, Ma QC, McKinney S, Fee J and Aparicio SA (2008) Intensity calibration and automated cell cycle gating for high-throughput image-based siRNA screens of mammalian cells. Cytometry Part A 73A(10):904-917. PMID: 18698634. Available at http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=18698634

Aragay, Anna (1 publication)

Minsaas L, Planaguma J, Madziva M, Krakstad BF, Masia-Balague M, Katz AA and Aragay AM (2010) Filamin A Binds to CCR2B and Regulates Its Internalization. PLoS ONE 5(8):e12212. PMID: none. Available at http://dx.doi.org/10.1371%2Fjournal.pone.0012212

Argueso, Pablo (1 publication)

Sumiyoshi M, Ricciuto J, Tisdale A, Gipson IK, Mantelli F and Argueso P (2008) Antiadhesive character of mucin O-glycans at the apical surface of corneal epithelial cells. Investigative Ophthalmology & Visual Science 49(1):197-203. PMID: 18172093. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18172093

Arrieumerlou, Cécile (2 publications)

Kasper CA, Sorg I, Schmutz C, Tschon T, Wischnewski H, Kim ML and Arrieumerlou C (2010) Cell-Cell Propagation of NF-[kappa]B Transcription Factor and MAP Kinase Activation Amplifies Innate Immunity against Bacterial Infection. Immunity 33(5):804-816. PMID: 21093316. Available at http://www.ncbi.nlm.nih.gov/pubmed/21093316

Reiterer V, Grossniklaus L, Tschon T, Kasper CA, Sorg I and Arrieumerlou C (2011) Shigella flexneri type III secreted effector OspF reveals new crosstalks of proinflammatory signaling pathways during bacterial infection. Cellular Signalling 23(7):1188-1196. PMID: 21402152. Available at http://www.ncbi.nlm.nih.gov/pubmed/21402152

Ausubel, Frederick (2 publications)

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(7):527-33. PMID: 19572548. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19572548

Irazoqui JE and Ausubel FM (2010) 99th Dahlem Conference on Infection, Inflammation and Chronic Inflammatory Disorders: Caenorhabditis elegans as a model to study tissues involved in host immunity and microbial pathogenesis. Clinical & Experimental Immunology 160(1):48-57. PMID: 20415851 Available at http://www.ncbi.nlm.nih.gov/pubmed/20415851

Badawy, Wael (1 publication)

Prasad B and Badawy W (2008) High-throughput identification and classification algorithm for leukemia population statistics. Journal of Imaging Science and Technology 52(3):23. PMID: none. Available at http://dx.doi.org/10.2352/J.ImagingSci.Technol.(2008)52:3(030509)

Badylak, Stephen F. (1 publication)

Keane TJ, Londono R, Turner NJ and Badylak SF (2012) Consequences of ineffective decellularization of biologic scaffolds on the host response. Biomaterials 33(6):1771-1781. PMID: 22137126. Available at http://www.ncbi.nlm.nih.gov/pubmed/22137126

Baker, Monya (1 publication)

Baker M (2010) Cellular imaging: Taking a long, hard look. Nature 466(7310):1137-1140. PMID: 20740018. Available at http://www.ncbi.nlm.nih.gov/pubmed/20740018

Bao, Zhirong (1 publication)

Santella A, Du Z, Nowotschin S, Hadjantonakis A-K and Bao Z (2010) A hybrid blob-slice model for accurate and efficient detection of fluorescence labeled nuclei in 3D. BMC Bioinformatics 11(1):580. PMID: 21114815. Available at http://www.ncbi.nlm.nih.gov/pubmed/21114815

Bastiaens, Philippe I.H. (1 publication)

Grecco HE, Roda-Navarro P, Fengler S and Bastiaens PIH (2011) Chapter three - High-Throughput Quantification of Posttranslational Modifications In Situ by CA-FLIM. Methods in Enzymology 500:37-58. PMID: 21943891. Available at http://www.ncbi.nlm.nih.gov/pubmed/21943891

Bathe, Mark (1 publication)

Monnier N, Guo SM, Mori M, He J, Lenart P and Bathe M (2012) Bayesian Approach to MSD-Based Analysis of Particle Motion in Live Cells. Biophysical Journal 103(3):616-626. PMID: 22947879. Available at http://dx.doi.org/10.1016/j.bpj.2012.06.029

Baum, Buzz (2 publications)

Aghajanian J, Warrell J, Prince SJD, Peng L, Rohn JL and Baum B (2009) Patch-based within-object classification. IEEE International Conference on Computer Vision (ICCV):1125-1132. PMID: none. Available at http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=5459352

Sims D, Duchek P and Baum B (2009) PDGF/VEGF signaling controls cell size in Drosophila. Genome Biology 10(2):R20. PMID: 19216764. Available at http://genomebiology.com/2009/10/2/R20

Berger, Bonnie (1 publication)

Nir O, Bakal C, Perrimon N and Berger B (2010) Inference of RhoGAP/GTPase regulation using single-cell morphological data from a combinatorial RNAi screen. Genome Research 20(3):372-380. PMID: 20144944. Available at http://dx.doi.org/10.1101/gr.100248.109

Bernards, Rene (1 publication)

Mullenders J, Fabius AWM, van Dongen MMW, Kuiken HJ, Beijersbergen RL and Bernards R (2010) Interleukin-1R-Associated Kinase 2 Is a Novel Modulator of the Transforming Growth Factor Beta Signaling Cascade. Molecular Cancer Research 8(4):592-603. PMID: 20332216. Available at http://www.ncbi.nlm.nih.gov/pubmed/20332216

Berns, Anton (1 publication)

van Amerongen R, Nawijn MC, Lambooij JP, Proost N, Jonkers J and Berns A (2010) Frat oncoproteins act at the crossroad of canonical and noncanonical Wnt-signaling pathways. Oncogene 29(1):93-104. PMID: 19802005. Available at http://www.ncbi.nlm.nih.gov/pubmed/19802005

Bertrand, Pascale (1 publication)

Barascu A, Le Chalony C, Pennarun G, Genet D, Imam N, Lopez B and Bertrand P (2012) Oxidative stress induces an ATM-independent senescence pathway through p38 MAPK-mediated lamin B1 accumulation. The EMBO Journal 31(5):1080-1094. PMID: 22246186. Available at http://www.ncbi.nlm.nih.gov/pubmed/22246186

Bickle, Marc (1 publication)

Niederlein A, Meyenhofer F, White D and Bickle M (2009) Image Analysis in High Content Screening. Combinatorial Chemistry & High Throughput Screening 12:899-907. PMID: none. Available at http://dx.doi.org/10.2174/138620709789383213

Bilder, David (1 publication)

O'Brien Lucy E, Soliman Sarah S, Li X and Bilder D (2011) Altered Modes of Stem Cell Division Drive Adaptive Intestinal Growth. Cell 147(3):603-614. PMID: 22036568. Available at http://www.ncbi.nlm.nih.gov/pubmed/22036568

Bilsland, Alan (1 publication)

Keith WN and Bilsland AE (2008) Targeting Telomerase: Therapeutic Options for Cancer Treatment. Telomeres and Telomerase in Ageing, Disease, and Cancer:247-283. PMID: none. Available at http://dx.doi.org/10.1007/978-3-540-73709-4_13

Bissell, Taylor (1 publication)

Deasy BM, Chirieleison SM, Witt AM, Peyton MJ and Bissell TA (2010) Tracking Stem Cell Function with Computers Via Live Cell Imaging: Identifying Donor Variability in Human Stem Cells. Operative Techniques in Orthopaedics 20(2):127-135. PMID: none. Available at http://www.sciencedirect.com/science/article/B7596-505WSJ3-D/2/9e5547217a713d994ac86ce598a92d8c

Bittner, Michael L. (1 publication)

Hua JP, Sima C, Cypert M, Gooden GC, Shack S, Alla L, Smith EA, Trent JM, Dougherty ER and Bittner ML (2012) Tracking transcriptional activities with high-content epifluorescent imaging. Journal of Biomedical Optics 17(4). PMID: 22559686. Available at http://dx.doi.org/10.1117/1.jbo.17.4.046008

Blagg, Brian S. J. (1 publication)

Duerfeldt AS, Peterson LB, Maynard JC, Ng CL, Eletto D, Ostrovsky O, Shinogle HE, Moore DS, Argon Y, Nicchitta CV and Blagg BSJ (2012) Development of a Grp94 inhibitor. Journal of the American Chemical Society 134(23):9796-9804. PMID: 22642269. Available at http://pubs.acs.org/doi/pdfplus/10.1021/ja303477g

Blagoev, Blagoy (1 publication)

Akimov V, Rigbolt KTG, Nielsen MM and Blagoev B (2011) Characterization of ubiquitination dependent dynamics in growth factor receptor signaling by quantitative proteomics. Molecular BioSystems 7(12):3223-3233. PMID: 21956701. Available at http://www.ncbi.nlm.nih.gov/pubmed/21956701

Blomberg, Anders (1 publication)

Blomberg A (2011) Measuring growth rate in high-throughput growth phenotyping. Current Opinion in Biotechnology 22(1):94-102. PMID: 21095113. Available at http://www.ncbi.nlm.nih.gov/pubmed/21095113

Boehm, Jesse (1 publication)

Hahn WC, Dunn IF, Kim SY, Schinzel AC, Firestein R, Guney I and Boehm JS (2009) Integrative genomic approaches to understanding cancer. Biochimica et Biophysica Acta 1790(6):478-484. PMID: 19364473. Available at http://www.sciencedirect.com/science/article/B6T1W-4VKDMT7-3/2/873a2225c9648dc28beabb5e8ac85b46

Bolwell, G. Paul (1 publication)

Daudi A, Cheng ZY, O'Brien JA, Mammarella N, Khan S, Ausubel FM and Bolwell GP (2012) The Apoplastic Oxidative Burst Peroxidase in Arabidopsis Is a Major Component of Pattern-Triggered Immunity. Plant Cell 24(1):275-287. PMID: 22247251. Available at http://dx.doi.org/10.1105/tpc.111.093039

Boone, Charles (1 publication)

Baryshnikova A, Costanzo M, Dixon S, Vizeacoumar FJ, Myers CL, Andrews B, Boone C, Jonathan W, Christine G and Gerald RF (2010) Synthetic Genetic Array (SGA) Analysis in Saccharomyces cerevisiae and Schizosaccharomyces pombe. Methods in Enzymology 470:145-179. PMID: 20946810. Available at http://www.sciencedirect.com/science/article/B7CV2-4YH5590-D/2/d921ed7673597ad19564dff94d867152

Boutros, Michael (2 publications)

Falschlehner C, Steinbrink S, Erdmann G and Boutros M (2010) High-throughput RNAi screening to dissect cellular pathways: A how-to guide. Biotechnology Journal 5(4):368-376. PMID: 20349460. Available at http://www.ncbi.nlm.nih.gov/pubmed/20349460

Metzig M, Nickles D, Falschlehner C, Lehmann-Koch J, Straub BK, Roth W and Boutros M (2011) An RNAi screen identifies USP2 as a factor required for TNF-α-induced NF-κB signaling. International Journal of Cancer 129(3):607-618. PMID: 21480224. Available at http://www.ncbi.nlm.nih.gov/pubmed/21480224

Bradley, Mark (1 publication)

Diaz-Mochon JJ, Tourniaire G and Bradley M (2006) Microarray platforms for enzymatic and cell-based assays. Chemical Society Reviews 36:449-457. PMID: 17325784. Available at http://www.rsc.org/Publishing/Journals/CS/article.asp?doi=b511848b

Brady, Michael (1 publication)

Ali R, Gooding M, Szilagyi T, Vojnovic B, Christlieb M and Brady M (2011) Automatic segmentation of adherent biological cell boundaries and nuclei from brightfield microscopy images. Machine Vision and Applications 23(4):1-15. PMID: none. Available at http://dx.doi.org/10.1007/s00138-011-0337-9

Brady, Nathan R. (1 publication)

Reis Y, Bernardo-Faura M, Richter D, Wolf T, Brors B, Hamacher-Brady A, Eils R and Brady NR (2012) Multi-Parametric Analysis and Modeling of Relationships between Mitochondrial Morphology and Apoptosis. PLoS ONE 7(1):e28694. PMID: 22272225. Available at http://www.ncbi.nlm.nih.gov/pubmed/22272225

Bramham, Clive R. (1 publication)

Wibrand K, Pai B, Siripornmongcolchai T, Bittins M, Berentsen B, Ofte ML, Weigel A, Skaftnesmo KO and Bramham CR (2012) MicroRNA Regulation of the Synaptic Plasticity-Related Gene Arc. PLoS ONE 7(7). PMID: 22844515. Available at http://dx.plos.org/10.1371/journal.pone.0041688

Brandi, Maria (1 publication)

Togriarini I, Sorace S, Zonefrati R, Galli G, Gozzini A, Sala SC, Thyrion GDZ, Carossino AM, Tanini A, Mavilia C, Azzari C, Sbaiz F, Facchini A, Capanna R and Brandi ML (2008) In vitro differentiation of human mesenchymal stem cells on Ti6Al4V surfaces. Biomaterials 29(7):809-824. PMID: 18022689. Available at http://dx.doi.org/10.1016/j.biomaterials.2007.10.043

Brehm-Stecher, Byron (1 publication)

Weinkauf H and Brehm-Stecher BF (2009) Enhanced dark field microscopy for rapid artifact-free detection of nanoparticle binding to <I>Candida albicans</I> cells and hyphae. Biotechnology Journal 4(6):871-879. PMID: 19492326. Available at http://www.ncbi.nlm.nih.gov/pubmed/19492326

Brent, Roger (1 publication)

Gordon A, Colman-Lerner A, Chin TE, Benjamin KR, Yu RC and Brent R (2007) Single-cell quantification of molecules and rates using open-source microscope-based cytometry. Nature Methods 4(2):175-181. PMID: 17237792. Available at http://www.ncbi.nlm.nih.gov/pubmed/17237792

Bretschneider, Till (4 publications)

Du C-J, Marcello M, Spiller DG, White MRH and Bretschneider T (2010) Interactive segmentation of clustered cells via geodesic commute distance and constrained density weighted Nyström method. Cytometry Part A 77A(12):1137-1147. PMID: 21069796. Available at http://www.ncbi.nlm.nih.gov/pubmed/21069796

Bretschneider T (2011) Cartography of spatio-temporal cellular dynamics. Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on:1717-1718. PMID: none. Available at http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=5872735

Downey M, Vance KW and Bretschneider T (2011) LineageTracker: A statistical scoring method for tracking cell lineages in large cell populations with low temporal resolution. Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on:1913-1916. PMID: none. Available at http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=5872783

Downey MJ, Jeziorska DM, Ott S, Tamai TK, Koentges G, Vance KW and Bretschneider T (2011) Extracting Fluorescent Reporter Time Courses of Cell Lineages from High-Throughput Microscopy at Low Temporal Resolution. PLoS ONE 6(12):e27886. PMID: 22194797. Available at http://www.ncbi.nlm.nih.gov/pubmed/22194797

Brix, Klaudia (4 publications)

Buth H, Buttigieg PL, Ostafe R, Rehders M, Dannenmann SR, Schaschke N, Stark HJ, Boukamp P and Brix K (2007) Cathepsin B is essential for regeneration of scratch-wounded normal human epidermal keratinocytes. European Journal of Cell Biology 86(11-12):747-761. PMID: 17651862. Available at http://dx.doi.org/10.1016/j.ejeb.2007.03.009

Mayer K, Iolyeva ME, Meyer-Grahle U and Brix K (2008) Intestine-specific expression of green fluorescent protein-tagged cathepsin B: proof-of-principle experiments. Biological Chemistry 389(8):1085-1096. PMID: 18979632. Available at http://dx.doi.org/10.1515/bc.2008.112

Dauth S, Sirbulescu RF, Jordans S, Rehders M, Avena L, Oswald J, Lerchl A, Saftig P and Brix K (2011) Cathepsin K deficiency in mice induces structural and metabolic changes in the central nervous system that are associated with learning and memory deficits. BMC Neuroscience 12. PMID: 21794126. Available at http://dx.doi.org/10.1186/1471-2202-12-74

Rehders M, Grosshauser BB, Smarandache A, Sadhukhan A, Mirastschijski U, Kempf J, Dunne M, Slenzka K and Brix K (2011) Effects of lunar and mars dust simulants on HaCaT keratinocytes and CHO-K1 fibroblasts. Advances in Space Research 47(7):1200-1213. PMID: none. Available at http://www.sciencedirect.com/science/article/pii/S0273117710007647

Brorson, James R. (1 publication)

Li DD, Bai T and Brorson JR (2011) Adaptation to moderate hypoxia protects cortical neurons against ischemia-reperfusion injury and excitotoxicity independently of HIF-1 alpha. Experimental Neurology 230(2):302-310. PMID: 21619879. Available at http://dx.doi.org/10.1016/j.expneurol.2011.05.009

Bruinink, Arie (1 publication)

Burguera EF, Bitar M and Bruinink A (2010) Novel in vitro co-culture methodology to investigate heterotypic cell-cell interactions. European Cells & Materials 19:166-179. PMID: 20419629. Available at http://www.ncbi.nlm.nih.gov/pubmed/20419629

Bruland, Torunn (1 publication)

Fjeldbo CS, Misund K, Gunther CC, Langaas M, Steigedal TS, Thommesen L, Laegreid A and Bruland T (2008) Functional studies on transfected cell microarray analysed by linear regression modelling. Nucleic Acids Research 36(15):e97. PMID: 18628295. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18628295

Buchholz, Frank (1 publication)

Krastev DB, Slabicki M, Paszkowski-Rogacz M, Hubner NC, Junqueira M, Shevchenko A, Mann M, Neugebauer KM and Buchholz F (2011) A systematic RNAi synthetic interaction screen reveals a link between p53 and snoRNP assembly. Nature Cell Biology 13(7):809-818. PMID: 21642980. Available at http://www.ncbi.nlm.nih.gov/pubmed/21642980

Bux, Faizal (1 publication)

White S, Anandraj A and Bux F (2011) PAM fluorometry as a tool to assess microalgal nutrient stress and monitor cellular neutral lipids. Bioresource Technology 102(2):1675-1682. PMID: 20965719. Available at http://www.ncbi.nlm.nih.gov/pubmed/20965719

Campisi, Judith (3 publications)

Rodier F, Coppe J-P, Patil CK, Hoeijmakers WAM, Munoz DP, Raza SR, Freund A, Campeau E, Davalos AR and Campisi J (2009) Persistent DNA damage signalling triggers senescence-associated inflammatory cytokine secretion. Nature Cell Biology advanced online publication. PMID: 19597488. Available at http://dx.doi.org/10.1038/ncb1909

Freund A, Patil CK and Campisi J (2011) p38MAPK is a novel DNA damage response-independent regulator of the senescence-associated secretory phenotype. The EMBO Journal 30(8):1536-1548. PMID: 21399611. Available at http://www.ncbi.nlm.nih.gov/pubmed/21399611

Freund A, Laberge RM, Demaria M and Campisi J (2012) Lamin B1 loss is a senescence-associated biomarker. Molecular Biology of the Cell 23(11):2066-2075. PMID: 22496421. Available at http://www.molbiolcell.org/content/23/11/2066.short

Caplan, Arnold (1 publication)

Meirelles LD, Sand TT, Harman RJ, Lennon DP and Caplan AI (2009) MSC Frequency Correlates with Blood Vessel Density in Equine Adipose Tissue. Tissue Engineering Part A 15(2):221-229. PMID: 18847356. Available at http://dx.doi.org/10.1089/ten.tea.2008.0103

Capon, Robert (1 publication)

Salim AA, Rae J, Fontaine F, Conte MM, Khalil Z, Martin S, Parton RG and Capon RJ (2010) Heterofibrins: inhibitors of lipid droplet formation from a deep-water southern Australian marine sponge, Spongia (Heterofibria) sp. Organic & Biomolecular Chemistry 8(14):3188-3194. PMID: 20626092. Available at http://www.ncbi.nlm.nih.gov/pubmed/20626092

Carbone, Roberta (1 publication)

Giorgetti L, Zanardi A, Venturini S and Carbone R (2007) ImmunoCell-Array: a novel technology for pathway discovery and cell profiling. Expert Review of Proteomics 4(5):609-616. PMID: 17941816. Available at http://dx.doi.org/10.1586/14789450.4.5.609

Cardona, Albert (1 publication)

Schindelin J, Arganda-Carreras I, Frise E, Kaynig V, Longair M, Pietzsch T, Preibisch S, Rueden C, Saalfeld S, Schmid B, Tinevez JY, White DJ, Hartenstein V, Eliceiri K, Tomancak P and Cardona A (2012) Fiji: an open-source platform for biological-image analysis. Nature Methods 9(7):676-682. PMID: 22743772. Available at http://www.nature.com/nmeth/journal/v9/n7/pdf/nmeth.2019.pdf

Carlin, Sean (1 publication)

Oehler C, O'Donoghue JA, Russell J, Zanzonico P, Lorenzen S, Ling CC and Carlin S (2011) 18F-Fluromisonidazole PET Imaging as a Biomarker for the Response to 5,6-Dimethylxanthenone-4-Acetic Acid in Colorectal Xenograft Tumors. Journal of Nuclear Medicine 52(3):437-444. PMID: 21321262. Available at http://dx.doi.org/10.2967/jnumed.110.081372

Carpenter, Anne E. (20 publications)

Carpenter AE (2007) Image-based chemical screening. Nature Chemical Biology 3(8):461-5. PMID: 17637778. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17637778

Carpenter AE (2007) Software opens the door to quantitative imaging. Nature Methods 4(2):120-1. PMID: 17264858. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17264858

Jones TR and Carpenter AE (2007) Flexible image analysis. Biophotonics International 14(7):31-32. PMID: none. Available at http://www.photonics.com/Article.aspx?AID=38554

Lamprecht MR, Sabatini DM and Carpenter AE (2007) CellProfiler: free, versatile software for automated biological image analysis. Biotechniques 42(1):71-5. PMID: 17269487. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17269487

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. PMID: 19014601. Available at http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=19014601

Ljosa V and Carpenter AE (2008) High-throughput screens for fluorescent dye discovery. Trends in Biotechnology 26(10):527-30. PMID: 18706725. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18706725

Vokes MS and Carpenter AE (2008) Using CellProfiler for automatic identification and measurement of biological objects in images. Current Protocols in Molecular Biology 82:14.17.1-14.17.12. PMID: 18425761. Available at http://www.ncbi.nlm.nih.gov/pubmed/18425761

Vokes MS and Carpenter AE (2008) CellProfiler: Open-Source Software to Automatically Quantify Images. Microscopy Today 16(5):38-39. PMID: none. Available at http://www.broadinstitute.org/~anne/publications/33-Vokes_MicroscopyToday_2008.pdf

Carpenter AE (2009) Data analysis: Extracting rich information from images. Methods in Molecular Biology 486:250. PMID: 19347625. Available at http://www.ncbi.nlm.nih.gov/pubmed/19347625

Carpenter AE (2010) High-content screening: Practical advice, tools, and resources. Society for Biomolecular Sciences News (48):5-6. PMID: none. Available at http://www.slas.org/publications/sbs_news.cfm

Carpenter AE (2010) High-content screening: FAQs about trends, technologies, and outcomes. Society for Biomolecular Sciences News (47):3. PMID: none. Available at http://www.slas.org/publications/sbs_news.cfm

Kim K, Rowat AC and Carpenter AE (2010) Automated Tracking of Yeast Cell Lineages. Proceedings of SPIE 7798. PMID: none. Available at http://adsabs.harvard.edu/abs/2010SPIE.7798E..60K

Logan DJ and Carpenter AE (2010) Screening cellular feature measurements for image-based assay development. Journal of Biomolecular Screening 15(7):840-6. PMID: 20516293. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=20516293

Carpenter AE (2011) Extracting biomedically important information from large, automated imaging experiments. Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on:1723-1726. PMID: none. Available at http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=5872737

Kamentsky L, Jones TR, Fraser A, Bray M-A, Logan DJ, Madden KL, Ljosa V, Rueden C, Eliceiri KW and Carpenter AE (2011) Improved structure, function, and compatibility for CellProfiler: modular high-throughput image analysis software. Bioinformatics. PMID: 21349861. Available at http://www.ncbi.nlm.nih.gov/pubmed/21349861

Lindquist RA, Ottina KA, Wheeler DB, Hsu PP, Thoreen CC, Guertin DA, Ali SM, Sengupta S, Shaul YD, Lamprecht MR, Madden KL, Papallo AR, Jones TR, Sabatini DM and Carpenter AE (2011) Genome-scale RNAi on living-cell microarrays identifies novel regulators of Drosophila melanogaster TORC1–S6K pathway signaling. Genome Research 21(3):433-446. PMID: 21239477. Available at http://www.ncbi.nlm.nih.gov/pubmed/21239477

Bray M-A, Fraser AN, Hasaka TP and Carpenter AE (2012) Workflow and Metrics for Image Quality Control in Large-Scale High-Content Screens. Journal of Biomolecular Screening 17(2):266-274. PMID: 21956170. Available at http://www.ncbi.nlm.nih.gov/pubmed/21956170

Eliceiri KW, Berthold MR, Goldberg IG, Ibanez L, Manjunath BS, Martone ME, Murphy RF, Peng H, Plant AL, Roysam B, Stuurmann N, Swedlow JR, Tomancak P and Carpenter AE (2012) Biological imaging software tools. Nature Methods 9(7):697-710. PMID: 22743775. Available at http://dx.doi.org/10.1038/nmeth.2084

Ljosa V, Sokolnicki KL and Carpenter AE (2012) Annotated high-throughput microscopy image sets for validation. Nature Methods 9(7):637-637. PMID: 22743765. Available at http://dx.doi.org/10.1038/nmeth.2083

Wahlby 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 and Carpenter AE (2012) An image analysis toolbox for high-throughput C. elegans assays. Nature Methods 9(7):714-U273. PMID: 22522656. Available at http://dx.doi.org/10.1038/nmeth.1984

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Blackwell E and Ceman S (2011) A new regulatory function of the region proximal to the RGG box in the Fragile X mental retardation protein. Journal of Cell Science 124(18):3060-3065. PMID: 21868366. Available at http://www.ncbi.nlm.nih.gov/pubmed/21868366

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Pauley K, Satoh M, Chan A, Bubb M, Reeves W and Chan E (2008) Upregulated miR-146a expression in peripheral blood mononuclear cells from rheumatoid arthritis patients. Arthritis Research & Therapy 10(4):R101. PMID: 18759964. Available at http://arthritis-research.com/content/10/4/R101

Pauley KM, Satoh M, Pauley BA, Dominguez-Gutierrez PR, Wallet SM, Holliday LS, Cha S, Reeves WH and Chan EKL (2009) Formation of GW/P bodies as marker for microRNA-mediated regulation of innate immune signaling in THP-1 cells. Immunology and Cell Biology 88(2):205-212. PMID: 19918258. Available at http://www.ncbi.nlm.nih.gov/pubmed/19918258

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Vendrell M, Zhai DT, Er JC and Chang YT (2012) Combinatorial Strategies in Fluorescent Probe Development. Chemical Reviews 112(8):4391-4420. PMID: 22616565. Available at http://dx.doi.org/10.1021/cr200355j

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Zhang L, Liu Y, Song F, Zheng H, Hu L, Lu H, Liu P, Hao X, Zhang W and Chen K (2011) Functional SNP in the microRNA-367 binding site in the 3′UTR of the calcium channel ryanodine receptor gene 3 (RYR3) affects breast cancer risk and calcification. Proceedings of the National Academy of Sciences 108(33):13653-13658. PMID: 21810988. Available at http://www.ncbi.nlm.nih.gov/pubmed/21810988

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Paget V, Sergent JA and Chevillard S (2011) Nano-silicon dioxide toxicological characterization on two human kidney cell lines. Journal of Physics: Conference Series 304(1):012080. PMID: none. Available at http://stacks.iop.org/1742-6596/304/i=1/a=012080

Sergent J-A, Paget V and Chevillard S (2012) Toxicity and Genotoxicity of Nano-SiO2 on Human Epithelial Intestinal HT-29 Cell Line. Annals of Occupational Hygiene. PMID: 22378843. Available at http://www.ncbi.nlm.nih.gov/pubmed/22378843

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Chung TD (2008) The Management of Chemical and Biological Information. Current Opinion in Drug Discovery & Development 11(3):299-300. PMID: none. Available at http://www.biomedcentral.com/1367-6733/11/299

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Wlodkowic D, Faley S, Skommer J, McGuinness D and Cooper JM (2009) Biological Implications of Polymeric Microdevices for Live Cell Assays. Analytical Chemistry 81(23):9828-9833. PMID: 19902928. Available at http://www.ncbi.nlm.nih.gov/pubmed/19902928

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Bauer N, Wilsch-Bräuninger M, Karbanová J, Fonseca A-V, Strauss D, Freund D, Thiele C, Huttner WB, Bornhäuser M and Corbeil D (2011) Haematopoietic stem cell differentiation promotes the release of prominin-1/CD133-containing membrane vesicles—a role of the endocytic–exocytic pathway. EMBO Molecular Medicine 3(7):398-409. PMID: 21591261. Available at http://www.ncbi.nlm.nih.gov/pubmed/21591261

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Mauricio CRM, Schneider FK and Correia dos Santos L (2010) Image-based red cell counting for wild animals blood. IEEE Conference on Engineering in Medicine and Biology Society (EMBS):438-441. PMID: 21096766. Available at http://www.ncbi.nlm.nih.gov/pubmed/21096766

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Hughey JJ, Lee TK and Covert MW (2009) Computational modeling of mammalian signaling networks. Wiley Interdisciplinary Reviews: Systems Biology and Medicine 2(2):194-209. PMID: none. Available at http://dx.doi.org/10.1002/wsbm.52

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Creton R (2009) Automated analysis of behavior in zebrafish larvae. Behavioural Brain Research 203(1):127-136. PMID: 19409932. Available at http://www.sciencedirect.com/science/article/B6SYP-4W6Y7W5-4/2/a429afd2aecb4d8eb91977fc8e7b5e5d

Pelkowski SD, Kapoor M, Richendrfer HA, Wang X, Colwill RM and Creton R (2011) A novel high-throughput imaging system for automated analyses of avoidance behavior in zebrafish larvae. Behavioural Brain Research 223(1):135-144. PMID: 21549762. Available at http://www.ncbi.nlm.nih.gov/pubmed/21549762

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Wen Q, Goldenson B, Silver SJ, Schenone M, Dancik V, Huang Z, Wang LZ, Lewis TA, An WF, Li XY, Bray MA, Thiollier C, Diebold L, Gilles L, Vokes MS, Moore CB, Bliss-Moreau M, VerPlank L, Tolliday NJ, Mishra R, Vemula S, Shi JJ, Wei L, Kapur R, Lopez CK, Gerby B, Ballerini P, Pflumio F, Gilliland DG, Goldberg L, Birger Y, Izraeli S, Gamis AS, Smith FO, Woods WG, Taub J, Scherer CA, Bradner JE, Goh BC, Mercher T, Carpenter AE, Gould RJ, Clemons PA, Carr SA, Root DE, Schreiber SL, Stern AM and Crispino JD (2012) Identification of Regulators of Polyploidization Presents Therapeutic Targets for Treatment of AMKL. Cell 150(3):575-589. PMID: 22863010. Available at http://dx.doi.org/10.1016/j.cell.2012.06.032

Cristea, Ileana (1 publication)

Greco TM, Yu F, Guise AJ and Cristea IM (2011) Nuclear Import of Histone Deacetylase 5 by Requisite Nuclear Localization Signal Phosphorylation. Molecular & Cellular Proteomics 10(2). PMID: 21081666. Available at http://www.ncbi.nlm.nih.gov/pubmed/21081666

Csucs, Gabor (2 publications)

Kozak K, Bakos G, Hoff A, Bennett E, Dunican D, Davies A, Kelleher D, Long A and Csucs G (2010) Workflow-Based Software Environment for Large-Scale Biological Experiments. Journal of Biomolecular Screening 15(7):892-899. PMID: 20625182. Available at http://www.ncbi.nlm.nih.gov/pubmed/20625182

Horvath P, Wild T, Kutay U and Csucs G (2011) Machine Learning Improves the Precision and Robustness of High-Content Screens: Using Nonlinear Multiparametric Methods to Analyze Screening Results. Journal of Biomolecular Screening. PMID: 21807964. Available at http://www.ncbi.nlm.nih.gov/pubmed/21807964

Czarnota, Gregory J. (1 publication)

Lee J, Karshafian R, Papanicolau N, Giles A, Kolios MC and Czarnota GJ (2012) QUANTITATIVE ULTRASOUND FOR THE MONITORING OF NOVEL MICROBUBBLE AND ULTRASOUND RADIOSENSITIZATION. Ultrasound in Medicine and Biology 38(7):1212-1221. PMID: 22579547. Available at http://dx.doi.org/10.1016/j.ultrasmedbio.2012.01.028

D'Lima, Darryl (1 publication)

Haudenschild DR, Chen J, Pang N, Lotz MK and D'Lima DD (2010) Rho kinase–dependent activation of SOX9 in chondrocytes. Arthritis & Rheumatism 62(1):191-200. PMID: 20039424. Available at http://www.ncbi.nlm.nih.gov/pubmed/20039424

Danishefsky, Samuel J. (1 publication)

Lecomte N, Njardarson JT, Nagorny P, Yang G, Downey R, Ouerfelli O, Moore MAS and Danishefsky SJ (2011) Emergence of potent inhibitors of metastasis in lung cancer via syntheses based on migrastatin. Proceedings of the National Academy of Sciences. PMID: 21808037. Available at http://www.pnas.org/content/early/2011/07/25/1015247108.abstractN2

Danuser, Gaudenz (1 publication)

Danuser G (2011) Computer Vision in Cell Biology. Cell 147(5):973-978. PMID: 22118455. Available at http://www.ncbi.nlm.nih.gov/pubmed/22118455

Darling, Eric M. (2 publications)

Desai HV, Voruganti IS, Jayasuriya C, Chen Q and Darling EM (2012) Live-cell, temporal gene expression analysis of osteogenic differentiation in adipose-derived stem cells. Tissue Engineering Part A. PMID: 22840182. Available at http://online.liebertpub.com/doi/abs/10.1089/ten.tea.2012.0127

Gonzalez-Cruz RD, Fonseca VC and Darling EM (2012) Cellular mechanical properties reflect the differentiation potential of adipose-derived mesenchymal stem cells. Proceedings of the National Academy of Sciences 109(24):E1523-E1529. PMID: 22615348. Available at http://dx.doi.org/10.1073/pnas.1120349109

Davey, Robert A. (3 publications)

Saeed MF, Kolokoltsov AA, Albrecht T and Davey RA (2010) Cellular Entry of Ebola Virus Involves Uptake by a Macropinocytosis-Like Mechanism and Subsequent Trafficking through Early and Late Endosomes. PLoS Pathogens 6(9):e1001110. PMID: 20862315. Available at http://www.ncbi.nlm.nih.gov/pubmed/20862315

Chen Z, Kolokoltsov AA, Wang J, Adhikary S, Lorinczi M, Elferink LA and Davey RA (2012) GRB2 Interaction with the Ecotropic Murine Leukemia Virus Receptor, mCAT-1, Controls Virus Entry and Is Stimulated by Virus Binding. Journal of Virology 86(3):1421-1432. PMID: 22090132. Available at http://www.ncbi.nlm.nih.gov/pubmed/22090132

Miller ME, Adhikary S, Kolokoltsov AA and Davey RA (2012) Ebolavirus requires acid sphingomyelinase activity and plasma membrane sphingomyelin for infection. Journal of Virology 86(14):7473-7483. PMID: 22573858. Available at http://jvi.asm.org/content/86/14/7473.short

Davies, John (1 publication)

Bender A, Young DW, Jenkins JL, Serrano M, Mikhailov D, Clemons PA and Davies JW (2007) Chemogenomic data analysis: prediction of small-molecule targets and the advent of biological fingerprint. Combinatorial Chemistry & High Throughput Screening 10(8):719-31. PMID: 18045083. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18045083

de Boer, Jan (2 publications)

Unadkat HV, Hulsman M, Cornelissen K, Papenburg BJ, Truckenmüller RK, Post GF, Uetz M, Reinders MJT, Stamatialis D, van Blitterswijk CA and de Boer J (2011) An algorithm-based topographical biomaterials library to instruct cell fate. Proceedings of the National Academy of Sciences 108(40):16565-16570. PMID: 21949368. Available at http://www.ncbi.nlm.nih.gov/pubmed/21949368

Barradas AMC, Fernandes HAM, Groen N, Chai YC, Schrooten J, van de Peppel J, van Leeuwen JPTM, van Blitterswijk CA and de Boer J (2012) A calcium-induced signaling cascade leading to osteogenic differentiation of human bone marrow-derived mesenchymal stromal cells. Biomaterials 33(11):3205-3215. PMID: 22285104. Available at http://www.ncbi.nlm.nih.gov/pubmed/22285104

Dehio, Christoph (3 publications)

Scheidegger F, Quebatte M, Mistl C and Dehio C (2011) The Bartonella henselae VirB/Bep system interferes with vascular endothelial growth factor (VEGF) signalling in human vascular endothelial cells. Cellular Microbiology 13(3):419-431. PMID: 21044238. Available at http://onlinelibrary.wiley.com/doi/10.1111/j.1462-5822.2010.01545.x/abstract

Truttmann MC, Misselwitz B, Huser S, Hardt W-D, Critchley DR and Dehio C (2011) Bartonella henselae engages inside-out and outside-in signaling by integrin β1 and talin1 during invasome-mediated bacterial uptake. Journal of Cell Science 124(21):3591-3602. PMID: 22045736. Available at http://www.ncbi.nlm.nih.gov/pubmed/22045736

Truttmann MC, Rhomberg TA and Dehio C (2011) Combined action of the type IV secretion effector proteins BepC and BepF promotes invasome formation of Bartonella henselae on endothelial and epithelial cells. Cellular Microbiology 13(2):284-299. PMID: 20964799. Available at http://www.ncbi.nlm.nih.gov/pubmed/20964799

Del Pozo, Miguel A. (1 publication)

Muriel O, Echarri A, Hellriegel C, Pavon DM, Beccari L and Del Pozo MA (2011) Phosphorylated filamin A regulates actin-linked caveolae dynamics. Journal of Cell Science 124(16):2763-2776. PMID: 21807941. Available at http://www.ncbi.nlm.nih.gov/pubmed/21807941

Demetris, Anthony J. (1 publication)

Isse K, Lesniak A, Grama K, Roysam B, Minervini MI and Demetris AJ (2012) Digital Transplantation Pathology: Combining Whole Slide Imaging, Multiplex Staining and Automated Image Analysis. American Journal of Transplantation 12(1):27-37. PMID: 22053785. Available at http://www.ncbi.nlm.nih.gov/pubmed/22053785

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Du G, Ravetto A, Fang Q and den Toonder J (2011) Cell types can be distinguished by measuring their viscoelastic recovery times using a micro-fluidic device. Biomedical Microdevices 13(1):29-40. PMID: 20838903. Available at http://www.ncbi.nlm.nih.gov/pubmed/20838903

Derby, Charles D. (1 publication)

Ko KC, Tai PC and Derby CD (2012) Mechanisms of Action of Escapin, a Bactericidal Agent in the Ink Secretion of the Sea Hare Aplysia californica: Rapid and Long-Lasting DNA Condensation and Involvement of the OxyR-Regulated Oxidative Stress Pathway. Antimicrobial Agents and Chemotherapy 56(4):1725-1734. PMID: 22232273. Available at http://aac.asm.org/content/56/4/1725.short

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Detmar, Michael (1 publication)

Geback T, Schulz MMP, Koumoutsakos P and Detmar M (2009) TScratch: a novel and simple software tool for automated analysis of monolayer wound healing assays. Biotechniques 46(4):265-+. PMID: 19450233. Available at http://dx.doi.org/10.2144/000113083

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Geisel D, Zimmermann E, Rief M, Greupner J, Laule M, Knebel F, Hamm B and Dewey M (2012) DNA double-strand breaks as potential indicators for the biological effects of ionising radiation exposure from cardiac CT and conventional coronary angiography: a randomised, controlled study. European Radiology 22(8):1641-1650. PMID: 22527372. Available at http://www.springerlink.com/content/x32274882q433776/

Dey, Sutirth (1 publication)

Yati A and Dey S (2011) FlyCounter: a simple software for counting large populations of small clumped objects in the laboratory. Biotechniques 51(5):347-348. PMID: 22054548. Available at http://dx.doi.org/10.2144/000113753

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Kuiken HJ, Egan DA, Laman H, Bernards R, Beijersbergen RL and Dirac AM (2012) Identification of F-box only protein 7 as a negative regulator of NF-kappaB signalling. Journal of Cellular and Molecular Medicine 16(9):2140-2149. PMID: 22212761. Available at http://onlinelibrary.wiley.com/doi/10.1111/j.1582-4934.2012.01524.x/abstract

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Kumerz M, Heiss EH, Schachner D, Atanasov AG and Dirsch VM (2011) Resveratrol inhibits migration and Rac1 activation in EGF- but not PDGF-activated vascular smooth muscle cells. Molecular Nutrition & Food Research 55(8):1230-1236. PMID: 21732534. Available at http://www.ncbi.nlm.nih.gov/pubmed/21732534

Dobrowsky, Rick (2 publications)

Zhang L, Yu C, Vasquez FE, Galeva N, Onyango I, Swerdlow RH and Dobrowsky RT (2009) Hyperglycemia Alters the Schwann Cell Mitochondrial Proteome and Decreases Coupled Respiration in the Absence of Superoxide Production. Journal of Proteome Research 9(1):458-471. PMID: 19905032. Available at http://www.ncbi.nlm.nih.gov/pubmed/19905032

Urban MJ, Li C, Yu C, Lu Y, Krise JM, McIntosh MP, Rajewski RA, Blagg BSJ and Dobrowsky RT (2010) Inhibiting heat-shock protein 90 reverses sensory hypoalgesia in diabetic mice. ASN Neuro 2(4):189-199. PMID: 20711301. Available at http://www.ncbi.nlm.nih.gov/pubmed/20711301

Douglas, Peter (1 publication)

Davies ML, Burrows HD, Cheng S, Moran MC, Miguel MdG and Douglas P (2009) Cationic Fluorene-Based Conjugated Polyelectrolytes Induce Compaction and Bridging in DNA. Biomacromolecules 10(11):2987-2997. PMID: 19817426. Available at http://www.ncbi.nlm.nih.gov/pubmed/19817426

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Du X and Dua S (2010) Segmentation of Fluorescence Microscopy Cell Images using Unsupervised Data Mining. Open Medical Informatics Journal 4:41-49. PMID: 21116323 Available at http://www.ncbi.nlm.nih.gov/pubmed/21116323

Dubrovsky, Tim (1 publication)

Guryev O, Abrams B, Lomas C, Nasraty Q, Park E and Dubrovsky T (2011) Control of the Fluorescence of Dye–Antibody Conjugates by (2-Hydroxypropyl)-β-cyclodextrin in Fluorescence Microscopy and Flow Cytometry. Analytical Chemistry 83(18):7109-7114. PMID: 21846137. Available at http://www.ncbi.nlm.nih.gov/pubmed/21846137

Edelman, Elazer (1 publication)

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Volkmer B and Heinemann M (2011) Condition-Dependent Cell Volume and Concentration of <italic>Escherichia coli</italic> to Facilitate Data Conversion for Systems Biology Modeling. PLoS ONE 6(7):e23126. PMID: 21829590. Available at http://www.ncbi.nlm.nih.gov/pubmed/21829590

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Hou Y-N, Lavaf A, Huang D, Peters S, Huq R, Friedrich V, Rosenstein BS and Kao J (2009) Development of an Automated gamma-H2AX Immunocytochemistry Assay. Radiation Research 171(3):360-367. PMID: 19267563. Available at http://www.bioone.org/doi/abs/10.1667/RR1349.1

Lavaf A, Fu S, Peters S, Hou Y-N, Rosenstein BS and Kao J (2009) ATM Phosphorylation Kinetics as a Biological Reporter of Cellular Radiosensitivity. Journal of Cancer Moledules 5(1):9-14. PMID: none. Available at http://mupnet.com/JOCM%205(1)%209.htm

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Velichkova M, Juan J, Kadandale P, Jean S, Ribeiro I, Raman V, Stefan C and Kiger AA (2010) Drosophila Mtm and class II PI3K coregulate a PI(3)P pool with cortical and endolysosomal functions. Journal of Cell Biology 190(3):407-425. PMID: 20696708 Available at http://www.ncbi.nlm.nih.gov/pubmed/20696708

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Wolinski H, Petrovic U, Mattiazzi M, Petschnigg J, Heise B, Natter K and Kohlwein SD (2009) Imaging-Based Live Cell Yeast Screen Identifies Novel Factors Involved in Peroxisome Assembly. Journal of Proteome Research 8(1):20-27. PMID: 19118449. Available at http://dx.doi.org/10.1021/pr800782n

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Brasier AR, Tian B, Jamaluddin M, Kalita MK, Garofalo RP and Lu M (2011) RelA Ser276 Phosphorylation-Coupled Lys310 Acetylation Controls Transcriptional Elongation of Inflammatory Cytokines in Respiratory Syncytial Virus Infection. Journal of Virology 85(22):11752-11769. PMID: 21900162. Available at http://www.ncbi.nlm.nih.gov/pubmed/21900162

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Stadler C, Hjelmare M, Neumann B, Jonasson K, Pepperkok R, Uhlen M and Lundberg E (2012) Systematic validation of antibody binding and protein subcellular localization using siRNA and confocal microscopy. Journal of Proteomics 75(7):2236-2251. PMID: 22361696. Available at http://dx.doi.org/10.1016/j.jprot.2012.01.030

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Quevedo O, García-Luis J, Matos-Perdomo E, Aragón L and Machín F (2012) Nondisjunction of a Single Chromosome Leads to Breakage and Activation of DNA Damage Checkpoint in G2. PLoS Genetics 8(2):e1002509. PMID: 22363215. Available at http://dx.doi.org/10.1371%2Fjournal.pgen.1002509

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Zhang B and Pham T (2011) Phenotype Recognition with Combined Features and Random Subspace Classifier Ensemble. BMC Bioinformatics 12(1):128. PMID: 21529372. Available at http://www.ncbi.nlm.nih.gov/pubmed/21529372

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De Vylder J, Rooms F and Philips W (2010) Segmentation of Cell Nuclei in Arabidopsis Thaliana Roots. Image Analysis and Recognition 6112:207-216. PMID: none. Available at http://dx.doi.org/10.1007/978-3-642-13775-4_21

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Hoesli CA, Raghuram K, Kiang RLJ, Mocinecová D, Hu X, Johnson JD, Lacík I, Kieffer TJ and Piret JM (2011) Pancreatic cell immobilization in alginate beads produced by emulsion and internal gelation. Biotechnology and Bioengineering 108(2):424-434. PMID: 20939004. Available at http://www.ncbi.nlm.nih.gov/pubmed/20939004

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Rouilly V, Pujadas E, Hullár B, Kunszt P and Podvineca M (2012) iBRAIN2: Automated analysis and data handling for RNAi screens. Healthgrid Applications and Technologies Meet Science Gateways for Life Sciences. PMID: 22942012. Available at http://books.google.com/books?hl=en&lr=&id=T-w96U-mnGoC&oi=fnd&pg=PA205&dq=CellProfiler+OR+%22cell+profiler%22+OR+%22cell-profiler%22&ots=QmoZ4qeBJL&sig=jNp8Cpa79U7-aR9Ck3nngoYegUU

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Laughney A, Krishnaswamy V, Schwab M, Wells WA, Paulsen KD and Pogue BW (2009) Biophysical interpretation and ex-vivo characterization of scattered light from tumor-associated breast stroma. Optical Tomography and Spectroscopy of Tissue VIII 7174:71741Y-9. PMID: none. Available at http://adsabs.harvard.edu/abs/2009SPIE.7174E..47L

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Danovi D, Folarin AA, Baranowski B and Pollard SM (2012) Chapter sixteen - High Content Screening of Defined Chemical Libraries Using Normal and Glioma-Derived Neural Stem Cell Lines. Methods in Enzymology 506:311-329. PMID: 22341231. Available at http://www.ncbi.nlm.nih.gov/pubmed/22341231

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Vogler N, Medyukhina A, Latka I, Kemper S, Beohm M, Dietzek B and Popp J (2011) Towards multimodal nonlinear optical tomography - experimental methodology. Laser Physics Letters 8(8):617-624. PMID: none. Available at http://onlinelibrary.wiley.com/doi/10.1002/lapl.201110033/abstract

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Glass M, Moller B, Zirkel A, Wachter K, Huttelmaier S and Posch S (2011) Scratch Assay Analysis with Topology-Preserving Level Sets and Texture Measures. Pattern Recognition and Image Analysis 6669:100-108. PMID: none. Available at http://dx.doi.org/10.1007/978-3-642-21257-4_13

Price, Jeffrey (2 publications)

Charlot D, Campa V, Azimi B, Mercola M, Ingermanson R, McDonough PM and Price JH (2008) Automated calcium measurements in live cardiomyocytes. IEEE Symposium on Biomedical Imaging (ISBI):316-319. PMID: none. Available at http://dx.doi.org/10.1109/ISBI.2008.4540996

McDonough PM, Agustin RM, Ingermanson RS, Loy PA, Buehrer BM, Nicoll JB, Prigozhina NL, Mikic I and Price JH (2009) Quantification of Lipid Droplets and Associated Proteins in Cellular Models of Obesity via High-Content/High-Throughput Microscopy and Automated Image Analysis. Assay and Drug Development Technologies 7(5):440-460. PMID: 19895345. Available at http://www.ncbi.nlm.nih.gov/pubmed/19895345

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Prodanov D (2011) Data ontology and an information system realization for web-based management of image measurements. Frontiers in Neuroinformatics 5. PMID: 22275893. Available at http://www.ncbi.nlm.nih.gov/pubmed/22275893

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Vink CA, Gaspar HB, Gabriel R, Schmidt M, McIvor RS, Thrasher AJ and Qasim W (2009) Sleeping Beauty Transposition From Nonintegrating Lentivirus. Molecular Therapy. PMID: 19417741. Available at http://dx.doi.org/10.1038/mt.2009.94

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Mu JJ, Wang Y, Luo H, Leng M, Zhang JL, Yang T, Besusso D, Jung SY and Qin J (2007) A proteomic analysis of ataxia telangiectasia-mutated (ATM)/ATM-Rad3-related (ATR) substrates identifies the ubiquitin-proteasome system as a regulator for DNA damage checkpoints. Journal of Biological Chemistry 282(24):17330-17334. PMID: 17478428. Available at http://www.ncbi.nlm.nih.gov/pubmed/17478428

Quaranta, Vito (3 publications)

Harris MP, Kim E, Weidow B, Wikswo JP and Quaranta V (2008) Migration of isogenic cell lines quantified by dynamic multivariate analysis of single-cell motility. Cell Adhesion & Migration 2(2):127-136. PMID: 19271355. Available at http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2634586/

Hassanein M, Weidow B, Koehler E, Bakane N, Garbett S, Shyr Y and Quaranta V (2011) Development of High-Throughput Quantitative Assays for Glucose Uptake in Cancer Cell Lines. Molecular Imaging and Biology 13(5):840-852. PMID: 20809209. Available at http://www.ncbi.nlm.nih.gov/pubmed/20809209

Georgescu W, Wikswo JP and Quaranta V (2012) CellAnimation: an open source MATLAB framework for microscopy assays. Bioinformatics 28(1):138-139. PMID: 22121157. Available at http://www.ncbi.nlm.nih.gov/pubmed/22121157

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Dobbelaere J, Josue F, Suijkerbuijk S, Baum B, Tapon N and Raff J (2008) A Genome-Wide RNAi Screen to Dissect Centriole Duplication and Centrosome Maturation in Drosophila. PLoS Biology 6(9):e224. PMID: 18798690. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18798690

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Grüning N-M, Rinnerthaler M, Bluemlein K, Mülleder M, Wamelink Mirjam MC, Lehrach H, Jakobs C, Breitenbach M and Ralser M (2011) Pyruvate Kinase Triggers a Metabolic Feedback Loop that Controls Redox Metabolism in Respiring Cells. Cell Metabolism 14(3):415-427. PMID: 21907146. Available at http://www.ncbi.nlm.nih.gov/pubmed/21907146

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Ohi Y, Qin H, Hong C, Blouin L, Polo JM, Guo T, Qi Z, Downey SL, Manos PD, Rossi DJ, Yu J, Hebrok M, Hochedlinger K, Costello JF, Song JS and Ramalho-Santos M (2011) Incomplete DNA methylation underlies a transcriptional memory of somatic cells in human iPS cells. Nature Cell Biology 13(5):541-549. PMID: 21499256. Available at http://www.ncbi.nlm.nih.gov/pubmed/21499256

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Li F, Zhang X, Jin Y-P, Mulder A and Reed EF (2011) Antibody ligation of human leukocyte antigen class I molecules stimulates migration and proliferation of smooth muscle cells in a focal adhesion kinase–dependent manner. Human Immunology 72(12):1150-1159. PMID: 22001078. Available at http://www.ncbi.nlm.nih.gov/pubmed/22001078

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Dennemarker J, Lohmuller T, Muller S, Aguilar SV, Tobin DJ, Peters C and Reinheckel T (2010) Impaired turnover of autophagolysosomes in cathepsin L deficiency. Biological Chemistry 391(8):913-922. PMID: 20536383. Available at http://www.ncbi.nlm.nih.gov/pubmed/20536383

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Tangemo C, Ronchi P, Colombelli J, Haselmann U, Simpson JC, Antony C, Stelzer EHK, Pepperkok R and Reynaud EG (2011) A novel laser nanosurgery approach supports de novo Golgi biogenesis in mammalian cells. Journal of Cell Science 124(6):978-987. PMID: 21378314. Available at http://www.ncbi.nlm.nih.gov/pubmed/21378314

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Vega FM, Fruhwirth G, Ng T and Ridley AJ (2011) RhoA and RhoC have distinct roles in migration and invasion by acting through different targets. Journal of Cell Biology 193(4):655-665. PMID: 2157639. Available at http://www.ncbi.nlm.nih.gov/pubmed/21576392

Vega FM, Colomba A, Reymond N, Thomas M and Ridley AJ (2012) RhoB regulates cell migration through altered focal adhesion dynamics. Open Biology 2. PMID: 22724071. Available at http://rsob.royalsocietypublishing.org/content/2/5/120076.full.pdf

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Rittscher J (2010) Characterization of Biological Processes through Automated Image Analysis. Annual Review of Biomedical Engineering 12(1):315-344. PMID: 20482277. Available at http://www.ncbi.nlm.nih.gov/pubmed/20482277

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Melichar HJ, Li O, Herzmark P, Padmanabhan RK, Oliaro J, Ludford-Menting MJ, Bousso P, Russell SM, Roysam B and Robey EA (2011) Quantifying subcellular distribution of fluorescent fusion proteins in cells migrating within tissues. Immunology and Cell Biology 89(4):549-557. PMID: 20956985. Available at http://www.ncbi.nlm.nih.gov/pubmed/20956985

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Gromicho M, Dinis J, Magalhaes M, Fernandes AR, Tavares P, Laires A, Rueff J and Rodrigues AS (2011) Development of imatinib and dasatinib resistance: dynamics of expression of drug transporters ABCB1, ABCC1, ABCG2, MVP, and SLC22A1. Leukemia & Lymphoma:1-11. PMID: 21663515. Available at http://www.ncbi.nlm.nih.gov/pubmed/21663515

Martins C, Doran C, Laires A, Rueff J and Rodrigues AS (2011) Genotoxic and apoptotic activities of the food flavourings myristicin and eugenol in AA8 and XRCC1 deficient EM9 cells. Food and Chemical Toxicology 49(2):385-392. PMID: 21087650. Available at http://www.ncbi.nlm.nih.gov/pubmed/21087650

Dinis J, Silva V, Gromicho M, Martins C, Laires A, Tavares P, Rendeiro P, Torres F, Rueff J and Rodrigues A (2012) DNA damage response in imatinib resistant chronic myeloid leukemia K562 cells. Leukemia & Lymphoma 53(10):2004-2014. PMID: 22475343. Available at http://informahealthcare.com/doi/abs/10.3109/10428194.2012.681654

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Harder N, Mora-Bermudez F, Godinez WJ, Wunsche A, Eils R, Ellenberg J and Rohr K (2009) Automatic analysis of dividing cells in live cell movies to detect mitotic delays and correlate phenotypes in time. Genome Research 19(11):2113-2124. PMID: 19797680. Available at http://www.ncbi.nlm.nih.gov/pubmed/19797680

Matula P, Kumar A, Worz I, Erfle H, Bartenschlager R, Eils R and Rohr K (2009) Single-Cell-Based Image Analysis of High-Throughput Cell Array Screens for Quantification of Viral Infection. Cytometry Part A 75A(4):309-318. PMID: 19006066. Available at http://dx.doi.org/10.1002/cyto.a.20662

Root, David (1 publication)

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. PMID: 16564017. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16564017

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Shedden K and Rosania GR (2010) Chemical address tags of fluorescent bioimaging probes. Cytometry Part A 77A(5):429-438. PMID: 20104576. Available at http://www.ncbi.nlm.nih.gov/pubmed/20104576

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Morissette MR, Stricker JC, Rosenberg MA, Buranasombati C, Levitan EB, Mittleman MA and Rosenzweig A (2009) Effects of myostatin deletion in aging mice. Aging Cell 8(5):573-583. PMID: 19663901. Available at http://www.ncbi.nlm.nih.gov/pubmed/19663901

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Lucas JT, Jr., Salimath BP, Slomiany MG and Rosenzweig SA (2010) Regulation of invasive behavior by vascular endothelial growth factor is HEF1-dependent. Oncogene 29(31):4449-4459. PMID: 20498643. Available at http://dx.doi.org/10.1038/onc.2010.185

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Strachan RT, Sciaky N, Cronan MR, Kroeze WK and Roth BL (2010) Genetic Deletion of p90 Ribosomal S6 Kinase 2 Alters Patterns of 5-Hydroxytryptamine2A Serotonin Receptor Functional Selectivity. Molecular Pharmacology 77(3):327-338. PMID: 19933401. Available at http://www.ncbi.nlm.nih.gov/pubmed/19933401

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Dittmar J, Reid R and Rothstein R (2010) ScreenMill: A freely available software suite for growth measurement, analysis and visualization of high-throughput screen data. BMC Bioinformatics 11(1):353. PMID: 20584323 Available at http://www.ncbi.nlm.nih.gov/pubmed/20584323

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Meiri D, Marshall CB, Greeve MA, Kim B, Balan M, Suarez F, Wu C, LaRose J, Fine N, Ikura M and Rottapel R (2012) Mechanistic Insight into the Microtubule and Actin Cytoskeleton Coupling through Dynein-Dependent RhoGEF Inhibition. Molecular Cell 45(5):642-655. PMID: 22405273. Available at http://www.sciencedirect.com/science/article/pii/S1097276512001694

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Lai FPL, Szczodrak M, Oelkers JM, Ladwein M, Acconcia F, Benesch S, Auinger S, Faix J, Small JV, Polo S, Stradal TEB and Rottner K (2009) Cortactin Promotes Migration and Platelet-derived Growth Factor-induced Actin Reorganization by Signaling to Rho-GTPases. Molecular Biology of the Cell 20(14):3209-3223. PMID: 19458196. Available at http://www.ncbi.nlm.nih.gov/pubmed/19458196

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Roch-Lefevre S, Mandina T, Voisin P, Gaetan G, Mesa JEG, Valente M, Bonnesoeur P, Garcia O, Voisin P and Roy L (2010) Quantification of gamma-H2AX Foci in Human Lymphocytes: A Method for Biological Dosimetry after Ionizing Radiation Exposure. Radiation Research 174(2):185-194. PMID: 20681785 Available at http://www.ncbi.nlm.nih.gov/pubmed/20681785

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Pretorius AJ, Bray M-AP, Carpenter AE and Ruddle RA (2011) Visualization of parameter space for image analysis. IEEE Transactions on Visualization and Computer Graphics (TVCG) 17(12):2402-11. PMID: 22034361. Available at http://dx.doi.org/10.1109/TVCG.2011.253

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Gilbert DF, Meinhof T, Pepperkok R and Runz H (2009) DetecTiff(C): A Novel Image Analysis Routine for High-Content Screening Microscopy. Journal of Biomolecular Screening:1087057109339523. PMID: 19641223. Available at http://jbx.sagepub.com/cgi/content/abstract/1087057109339523v1

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Sabatini, David (7 publications)

Wheeler DB, Bailey SN, Guertin DA, Carpenter AE, Higgins CO and Sabatini DM (2004) RNAi living-cell microarrays for loss-of-function screens in Drosophila melanogaster cells. Nature Methods 1(2):127-32. PMID: 15782175. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15782175

Wheeler DB, Carpenter AE and Sabatini DM (2005) Cell microarrays and RNA interference chip away at gene function. Nature Genetics 37 Suppl:S25-30. PMID: 15920526. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15920526

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. PMID: 16432521. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16432521

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(10):R100. PMID: 17076895. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17076895

Jones TR, Carpenter AE, Lamprecht MR, Moffat J, Silver SJ, Grenier JK, Castoreno AB, Eggert US, Root DE, Golland P and Sabatini DM (2009) Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning. Proceedings of the National Academy of Sciences 106(6):1826-1831. PMID: 19188593. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19188593

Kalaany NY and Sabatini DM (2009) Tumours with PI3K activation are resistant to dietary restriction. Nature 458(7239):725-731. PMID: 19279572. Available at http://dx.doi.org/10.1038/nature07782

Peterson TR, Sengupta SS, Harris TE, Carmack AE, Kang SA, Balderas E, Guertin DA, Madden KL, Carpenter AE, Finck BN and Sabatini DM (2011) mTOR Complex 1 Regulates Lipin 1 Localization to Control the SREBP Pathway. Cell 146(3):408-420. PMID: 21816276. Available at http://dx.doi.org/10.1016/j.cell.2011.06.034

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Ellis S, Akers RM, Capuco AV and Safayi S (2011) Bovine mammary epithelial cell lineages and parenchymal development. Journal of Animal Science. PMID: 22100590. Available at http://www.ncbi.nlm.nih.gov/pubmed/22100590

Sahin, Özgür (1 publication)

Jurmeister S, Baumann M, Balwierz A, Keklikoglou I, Ward A, Uhlmann S, Zhang JD, Wiemann S and Sahin Ö (2012) MicroRNA-200c Represses Migration and Invasion of Breast Cancer Cells by Targeting Actin-Regulatory Proteins FHOD1 and PPM1F. Molecular and Cellular Biology 32(3):633-651. PMID: 22144583. Available at http://www.ncbi.nlm.nih.gov/pubmed/22144583

Saltiel, Alan (2 publications)

Chiang S-H, Bazuine M, Lumeng CN, Geletka LM, Mowers J, White NM, Ma J-T, Zhou J, Qi N, Westcott D, Delproposto JB, Blackwell TS, Yull FE and Saltiel AR (2009) The Protein Kinase IKK[var epsilon] Regulates Energy Balance in Obese Mice. Cell 138(5):961-975. PMID: 19737522. Available at http://www.ncbi.nlm.nih.gov/pubmed/19737522

Chen X-W, Leto D, Xiong T, Yu G, Cheng A, Decker S and Saltiel AR (2011) A Ral GAP complex links PI 3-kinase/Akt signaling to RalA activation in insulin action. Molecular Biology of the Cell 22(1):141-152. PMID: 21148297. Available at http://www.ncbi.nlm.nih.gov/pubmed/21148297

Saltz, Joel (2 publications)

Mosaliganti K, Cooper L, Sharp R, Machiraju R, Leone G, Huang K and Saltz J (2007) Reconstruction of Cellular Biological Structures from Optical Microscopy Data. IEEE Transactions on Visualization and Computer Graphics (TVCG). PMID: 18467760. Available at http://www.ncbi.nlm.nih.gov/pubmed/18467760

Kong J, Cooper L, Kurc T, Brat D and Saltz J (2011) Towards building computerized image analysis framework for nucleus discrimination in microscopy images of diffuse glioma. Engineering in Medicine and Biology Society (EMBC), 2011 Annual International Conference of the IEEE:6605-6608. PMID: 22255853. Available at http://www.ncbi.nlm.nih.gov/pubmed/22255853

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Lagunas A, Comelles J, Martinez E and Samitier J (2010) Universal Chemical Gradient Platforms Using Poly(methyl methacrylate) Based on the Biotin‚àíStreptavidin Interaction for Biological Applications. Langmuir 26(17):14154-14161. PMID: 20712344. Available at http://www.ncbi.nlm.nih.gov/pubmed/20712344

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Castro-Gonzalez C, Ledesma-Carbayo MJ, Peyrieras N and Santos A (2012) Assembling models of embryo development: Image analysis and the construction of digital atlases. Birth Defects Research Part C-Embryo Today-Reviews 96(2):109-120. PMID: 22692885. Available at http://dx.doi.org/10.1002/bdrc.21012

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Bass GT, Ryall KA, Katikapalli A, Taylor BE, Dang ST, Acton ST and Saucerman JJ (2012) Automated image analysis identifies signaling pathways regulating distinct signatures of cardiac myocyte hypertrophy. Journal of Molecular and Cellular Cardiology 52(5):923-930. PMID: 22142594. Available at http://dx.doi.org/10.1016/j.yjmcc.2011.11.009

Ryall KA and Saucerman JJ (2012) Automated imaging reveals a concentration dependent delay in reversibility of cardiac myocyte hypertrophy. Journal of Molecular and Cellular Cardiology 53(2):282-290. PMID: 22575844. Available at http://dx.doi.org/10.1016/j.yjmcc.2012.04.016

Scarlatti, Gabriella (1 publication)

Heyndrickx L, Heath A, Sheik-Khalil E, Alcami J, Bongertz V, Jansson M, Malnati M, Montefiori D, Moog C, Morris L, Osmanov S, Polonis V, Ramaswamy M, Sattentau Q, Tolazzi M, Schuitemaker H, Willems B, Wrin T, Fenyo EM and Scarlatti G (2012) International Network for Comparison of HIV Neutralization Assays: The NeutNet Report II. PLoS ONE 7(5). PMID: 22590544. Available at http://www.plosone.org/article/fetchObjectAttachment.action?uri=info%3Adoi%2F10.1371%2Fjournal.pone.0036438&representation=PDF

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Peltier J, Conway A, Keung AJ and Schaffer DV (2010) Akt Increases Sox2 Expression in Adult Hippocampal Neural Progenitor Cells, but Increased Sox2 Does Not Promote Proliferation. Stem Cells and Development 20(7):1153-1161. PMID: 21028992. Available at http://www.ncbi.nlm.nih.gov/pubmed/21028992

Schauer, Kristine (1 publication)

Duong T, Goud B and Schauer K (2012) Closed-form density-based framework for automatic detection of cellular morphology changes. Proceedings of the National Academy of Sciences 109(22):8382-8387. PMID: 22586080. Available at http://www.pnas.org/content/109/22/8382.full.pdf

Schepartz, Alanna (1 publication)

Appelbaum JS, LaRochelle JR, Smith BA, Balkin DM, Holub JM and Schepartz A (2012) Arginine Topology Controls Escape of Minimally Cationic Proteins from Early Endosomes to the Cytoplasm. Chemistry & Biology 19(7):819-830. PMID: 22840770. Available at http://dx.doi.org/10.1016/j.chembiol.2012.05.022

Scherz, Avigdor (1 publication)

Feine I, Pinkas I, Salomon Y and Scherz A (2012) Local Oxidative Stress Expansion through Endothelial Cells - A Key Role for Gap Junction Intercellular Communication. PLoS ONE 7(7). PMID: 22911831. Available at http://dx.doi.org/10.1371/journal.pone.0041633

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Wiley DJ, Rosqvist R and Schesser K (2007) Induction of the Yersinia type 3 secretion system as an all-or-none phenomenon. Journal of Molecular Biology 373(1):27-37. PMID: 17825321. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17825321

Schlaepfer, David D. (3 publications)

Chen Xiao L, Nam J-O, Jean C, Lawson C, Walsh Colin T, Goka E, Lim S-T, Tomar A, Tancioni I, Uryu S, Guan J-L, Acevedo Lisette M, Weis Sara M, Cheresh David A and Schlaepfer David D (2012) VEGF-Induced Vascular Permeability Is Mediated by FAK. Developmental Cell 22(1):146-157. PMID: 22264731. Available at http://www.ncbi.nlm.nih.gov/pubmed/22264731

Lawson C, Lim S-T, Uryu S, Chen XL, Calderwood DA and Schlaepfer DD (2012) FAK promotes recruitment of talin to nascent adhesions to control cell motility. Journal of Cell Biology 196(2):223-232. PMID: 22270917. Available at http://www.ncbi.nlm.nih.gov/pubmed/22270917

Miller NLG, Lawson C, Chen XL, Lim ST and Schlaepfer DD (2012) Rgnef (p190RhoGEF) Knockout Inhibits RhoA Activity, Focal Adhesion Establishment, and Cell Motility Downstream of Integrins. PLoS ONE 7(5). PMID: 22649559. Available at http://dx.plos.org/10.1371/journal.pone.0037830

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LaPlante JM, Falardeau JL, Brown EM, Slaugenhaupt SA and Vassilev PM (2011) The cation channel mucolipin-1 is a bifunctional protein that facilitates membrane remodeling via its serine lipase domain. Experimental Cell Research 317(6):691-705. PMID: 21256127. Available at http://www.ncbi.nlm.nih.gov/pubmed/21256127

Vígh, László (2 publications)

Gombos I, Crul T, Piotto S, Güngör B, Török Z, Balogh G, Péter M, Slotte JP, Campana F, Pilbat A-M, Hunya Á, Tóth N, Literati-Nagy Z, Vígh L, Jr., Glatz A, Brameshuber M, Schütz GJ, Hevener A, Febbraio MA, Horváth I and Vígh L (2011) Membrane-Lipid Therapy in Operation: The HSP Co-Inducer BGP-15 Activates Stress Signal Transduction Pathways by Remodeling Plasma Membrane Rafts. PLoS ONE 6(12):e28818. PMID: 22174906. Available at http://www.ncbi.nlm.nih.gov/pubmed/22174906

Péter M, Balogh G, Gombos I, Liebisch G, Horváth I, Török Z, Nagy E, Maslyanko A, Benko S, Schmitz G, Harwood JL and Vigh L (2012) Nutritional lipid supply can control the heat shock response of B16 melanoma cells in culture. Molecular Membrane Biology (0):1-16. PMID: 22583025. Available at http://informahealthcare.com/doi/abs/10.3109/09687688.2012.680203

Villunger, Andreas (1 publication)

Labi V, Erlacher M, Krumschnabel G, Manzl C, Tzankov A, Pinon J, Egle A and Villunger A (2010) Apoptosis of leukocytes triggered by acute DNA damage promotes lymphoma formation. Genes & Development 24(15):1602-1607. PMID: 20679395. Available at http://www.ncbi.nlm.nih.gov/pubmed/20679395

von Recum, Horst (1 publication)

Lee EL and von Recum HA (2010) Cell culture platform with mechanical conditioning and nondamaging cellular detachment. Journal of Biomedical Materials Research Part A 93A(2):411-418. PMID: 20358641. Available at http://www.ncbi.nlm.nih.gov/pubmed/20358641

Vreugdenhil, Erno (1 publication)

Fitzsimons CP, van Hooijdonk LWA, Schouten M, Zalachoras I, Brinks V, Zheng T, Schouten TG, Saaltink DJ, Dijkmans T, Steindler DA, Verhaagen J, Verbeek FJ, Lucassen PJ, de Kloet ER, Meijer OC, Karst H, Joels M, Oitzl MS and Vreugdenhil E (2012) Knockdown of the glucocorticoid receptor alters functional integration of newborn neurons in the adult hippocampus and impairs fear-motivated behavior. Molecular Psychiatry. PMID: 22925833. Available at http://www.nature.com/mp/journal/vaop/ncurrent/full/mp2012123a.html

Wählby, Carolina (2 publications)

Allalou A, van de Rijke FM, Tafrechi RJ, Raap AK and Wahlby C (2007) Image Based Measurements of Single Cell mtDNA Mutation Load. Scandinavian Conference on Image Analysis. PMID: none. Available at http://www.springerlink.com/content/b12548446765l017/

Allalou A and Wahlby C (2009) BlobFinder, a tool for fluorescence microscopy image cytometry. Computer Methods and Programs in Biomedicine 94(1):58-65. PMID: 18950895. Available at http://linkinghub.elsevier.com/retrieve/pii/S0169260708002071

Wang-Rodriguez, Jessica (1 publication)

Martin DT, Sandoval S, Ta CN, Ruidiaz ME, Cortes-Mateos MJ, Messmer D, Kummel AC, Blair SL and Wang-Rodriguez J (2011) Quantitative Automated Image Analysis System with Automated Debris Filtering for the Detection of Breast Carcinoma Cells. Acta Cytologica 55(3):271-280. PMID: 21525740. Available at http://www.ncbi.nlm.nih.gov/pubmed/21525740

Wappner, Pablo (1 publication)

Dekanty A, Romero NM, Bertolin AP, Thomas MG, Leishman CC, Perez-Perri JI, Boccaccio GL and Wappner P (2010) Drosophila genome-wide RNAi screen identifies multiple regulators of HIF-dependent transcription in hypoxia. PLoS Genetics 6(6):e1000994. PMID: 20585616. Available at http://dx.doi.org/10.1371%2Fjournal.pgen.1000994

Wasser, Martin (2 publications)

Kriston-Vizi J, Thong N, Poh C, Yee K, Ling J, Kraut R and Wasser M (2011) Gebiss: an ImageJ plugin for the specification of ground truth and the performance evaluation of 3D segmentation algorithms. BMC Bioinformatics 12(1):232. PMID: 21668958. Available at http://www.ncbi.nlm.nih.gov/pubmed/21668958

Puah WC, Cheok LP, Biro M, Ng WT and Wasser M (2011) TLM-Converter: reorganization of long time-lapse microscopy datasets for downstream image analysis. BioTechniques 51(1):49-54. PMID: 21781053. Available at http://www.ncbi.nlm.nih.gov/pubmed/21781053

Weinberg, Robert (1 publication)

Hartwell KA, Muir B, Reinhardt F, Carpenter AE, Sgroi DC and Weinberg RA (2006) The Spemann organizer gene, Goosecoid, promotes tumor metastasis. Proceedings of the National Academy of Sciences 103(50):18969-74. PMID: 17142318. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17142318

Weinberger, Leor (1 publication)

Razooky BS and Weinberger LS (2011) Mapping the architecture of the HIV-1 Tat circuit: A decision-making circuit that lacks bistability and exploits stochastic noise. Methods 53(1):68-77. PMID: 21167940. Available at http://www.ncbi.nlm.nih.gov/pubmed/21167940

Weitz, Joshua (1 publication)

Price CA, Symonova O, Mileyko Y, Hilley T and Weitz JS (2011) Leaf Extraction and Analysis Framework Graphical User Interface: Segmenting and Analyzing the Structure of Leaf Veins and Areoles. Plant Physiology 155(1):236-245. PMID: 21057114. Available at http://www.ncbi.nlm.nih.gov/pubmed/21057114

West, Mike (2 publications)

Wang Q, Niemi J, Tan C-M, You L and West M (2010) Image segmentation and dynamic lineage analysis in single-cell fluorescence microscopy. Cytometry Part A 77A(1):101-110. PMID: 19845017. Available at http://www.ncbi.nlm.nih.gov/pubmed/19845017

Wang QL and West M (2012) Model-controlled flooding with applications to image reconstruction and segmentation. Journal of Electronic Imaging 21(2). PMID: 23049229. Available at http://electronicimaging.spiedigitallibrary.org/article.aspx?articleid=1352437

Wheeldon, Ian (1 publication)

Bauer M, Kim K, Qiu Y, Calpe B, Khadeinhosseini A, Liao R and Wheeldon I (2012) Spot Identification and Quality Control in Cell-Based Microarrays. ACS Combinatorial Science 14(8):471-477. PMID: 22850537. Available at http://dx.doi.org/10.1021/co300039w

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Kankaanpaa P, Paavolainen L, Tiitta S, Karjalainen M, Paivarinne J, Nieminen J, Marjomaki V, Heino J and White DJ (2012) BioImageXD: an open, general-purpose and high-throughput image-processing platform. Nature Methods 9(7):683-689. PMID: 22743773. Available at http://www.nature.com/nmeth/journal/v9/n7/pdf/nmeth.2047.pdf

White, Michael (1 publication)

Spiller DG, Wood CD, Rand DA and White MRH (2010) Measurement of single-cell dynamics. Nature 465(7299):736-745. PMID: 20535203. Available at http://www.ncbi.nlm.nih.gov/pubmed/20535203

Widmer, Giovanni (2 publications)

Bonilla-Santiago R, Wu Z, Zhang L and Widmer G (2008) Identification of growth inhibiting compounds in a Giardia lamblia high-throughput screen. Molecular & Biochemical Parasitology 162(2):149-54. PMID: 18796315. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18796315

Faghiri Z, Santiago RB, Wu Z and Widmer G (2011) High-throughput screening in suboptimal growth conditions identifies agonists of Giardia lamblia proliferation. Parasitology 138(02):194-200. PMID: 20696097. Available at http://www.ncbi.nlm.nih.gov/pubmed/20696097

Wilcox, Sheri K. (1 publication)

Mehan MR, Ayers D, Thirstrup D, Xiong W, Ostroff RM, Brody EN, Walker JJ, Gold L, Jarvis TC, Janjic N, Baird GS and Wilcox SK (2012) Protein Signature of Lung Cancer Tissues. PLoS ONE 7(4). PMID: 22509397. Available at http://www.plosone.org/article/fetchObjectAttachment.action?uri=info%3Adoi%2F10.1371%2Fjournal.pone.0035157&representation=PDF

Williams, John (1 publication)

Gurda GT, Crozier SJ, Ji B, Ernst SA, Logsdon CD, Rothermel BA and Williams JA (2010) Regulator of Calcineurin 1 Controls Growth Plasticity of Adult Pancreas. Gastroenterology 139(2):609-619.e6. PMID: 20438729 Available at http://www.ncbi.nlm.nih.gov/pubmed/20438729

Williams, Kevin P. (1 publication)

Thomas ZI, Gibson W, Sexton JZ, Aird KM, Ingram SM, Aldrich A, Lyerly HK, Devi GR and Williams KP (2011) Targeting GLI1 expression in human inflammatory breast cancer cells enhances apoptosis and attenuates migration. British Journal of Cancer 104(10):1575-1586. PMID: 21505458. Available at http://www.ncbi.nlm.nih.gov/pubmed/21505458

Williamson, Catherine (1 publication)

Milona A, Owen BM, van Mil S, Dormann D, Mataki C, Boudjelal M, Cairns W, Schoonjans K, Milligan S, Parker M, White R and Williamson C (2010) The normal mechanisms of pregnancy-induced liver growth are not maintained in mice lacking the bile acid sensor Fxr. American Journal of Physiology - Gastrointestinal and Liver Physiology 298(2):G151-158. PMID: 19815629. Available at http://www.ncbi.nlm.nih.gov/pubmed/19815629

Wolfrum, Christian (3 publications)

Meissburger B, Stachorski L, Röder E, Rudofsky G and Wolfrum C (2011) Tissue inhibitor of matrix metalloproteinase 1 (TIMP1) controls adipogenesis in obesity in mice and in humans. Diabetologia 54(6):1468-1479. PMID: 21437772. Available at http://www.ncbi.nlm.nih.gov/pubmed/21437772

Meissburger B, Ukropec J, Roeder E, Beaton N, Geiger M, Teupser D, Civan B, Langhans W, Nawroth PP, Gasperikova D, Rudofsky G and Wolfrum C (2011) Adipogenesis and insulin sensitivity in obesity are regulated by retinoid-related orphan receptor gamma. EMBO Molecular Medicine 3(11):637-651. PMID: 21853531. Available at http://www.ncbi.nlm.nih.gov/pubmed/21853531

Challa TD, Beaton N, Arnold M, Rudofsky G, Langhans W and Wolfrum C (2012) Regulation of adipocyte formation by GLP-1/GLP-1R signaling. Journal of Biological Chemistry 287(9):6421-6430. PMID: 22207759. Available at http://www.jbc.org/content/287/9/6421.short

Wong, Melissa H. (1 publication)

Hessman CJ, Bubbers EJ, Billingsley KG, Herzig DO and Wong MH (2012) Loss of expression of the cancer stem cell marker aldehyde dehydrogenase 1 correlates with advanced-stage colorectal cancer. The American Journal of Surgery. PMID: 22405917. Available at http://www.sciencedirect.com/science/article/pii/S0002961012000517

Wong, Stephen (8 publications)

Wang J, Zhou X, Li F and Wong ST (2006) Classify cellular phenotype in high-throughput fluorescence microscopy images for RNAi genome-wide screening IEEE Life Science Systems and Applications Workshop (LiSSA):1-2. PMID: none. Available at http://csdl2.computer.org/persagen/DLAbsToc.jsp?resourcePath=/dl/proceedings/&toc=comp/proceedings/lssa/2006/0277/00/0277toc.xml&DOI=10.1109/LSSA.2006.250404

Li F, Zhou X, Ma J and Wong ST (2007) An automated feedback system with the hybrid model of scoring and classification for solving over-segmentation problems in RNAi high content screening. Journal of Microscopy 226(Pt 2):121-32. PMID: 17444941. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17444941

Li F, Zhou X, Zhu J, Ma J, Huang X and Wong S (2007) High content image analysis for human H4 neuroglioma cells exposed to CuO nanoparticles. BMC Biotechnology 7(1):66. PMID: 17925027. Available at http://www.biomedcentral.com/1472-6750/7/66

Chen C, Li H, Zhou X and Wong ST (2008) Constraint factor graph cut-based active contour method for automated cellular image segmentation in RNAi screening. Journal of Microscopy 230(Pt 2):177-91. PMID: 18445146. Available at http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=18445146

Wang J, Zhou X, Bradley PL, Chang SF, Perrimon N and Wong ST (2008) Cellular phenotype recognition for high-content RNA interference genome-wide screening. Journal of Biomolecular Screening 13(1):29-39. PMID: 18227224. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18227224

Yan P, Zhou X, Shah M and Wong ST (2008) Automatic segmentation of high-throughput RNAi fluorescent cellular images. IEEE Transactions on Information Technology in Biomedicine (TITB) 12(1):109-17. PMID: 18270043. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18270043

Zhou X and Wong S (2008) Computational Systems Bioinformatics and Bioimaging for Pathway Analysis and Drug Screening. IEEE Institute of Electrical and Electronics Engineers Proceedings (IEEE) 96(8):1310-1331. PMID: none. Available at http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2790217/

Wang J, Zhou X, Li F, Bradley PL, Chang S-F, Perrimon N and Wong STC (2009) An image score inference system for RNAi genome-wide screening based on fuzzy mixture regression modeling. Journal of Biomedical Informatics 42(1):32-40. PMID: 18547870. Available at http://www.sciencedirect.com/science/article/B6WHD-4SD29SC-1/2/1799bbbd6a259327e77662996b48f946

Wurl, Peter (1 publication)

Udelnow A, Kreyes A, Ellinger S, Landfester K, Walther P, Klapperstueck T, Wohlrab J, Henne-Bruns D, Knippschild U and Wurl P (2011) Omeprazole Inhibits Proliferation and Modulates Autophagy in Pancreatic Cancer Cells. PLoS ONE 6(5):e20143. PMID: 21629657. Available at http://dx.doi.org/10.1371/journal.pone.0020143

Yang, Jingyu (1 publication)

Lu Y, Lu J, Liu T and Yang J (2011) Automated gene oscillation phase classification for zebrafish presomitic mesoderm cells. Cytometry Part A 79A(9):727-735. PMID: 21710640. Available at http://www.ncbi.nlm.nih.gov/pubmed/21710640

Yarden, Yosef (1 publication)

Zwang Y, Sas-Chen A, Drier Y, Shay T, Avraham R, Lauriola M, Shema E, Lidor-Nili E, Jacob-Hirsch J, Amariglio N, Lu Y, Mills GB, Rechavi G, Oren M, Domany E and Yarden Y (2011) Two Phases of Mitogenic Signaling Unveil Roles for p53 and EGR1 in Elimination of Inconsistent Growth Signals. Molecular Cell 42(4):524-535. PMID: 21596316. Available at http://www.ncbi.nlm.nih.gov/pubmed/21596316

Yellen, Gary (1 publication)

Hung Yin P, Albeck John G, Tantama M and Yellen G (2011) Imaging Cytosolic NADH-NAD+ Redox State with a Genetically Encoded Fluorescent Biosensor. Cell Metabolism 14(4):545-554. PMID: 21982714. Available at http://www.ncbi.nlm.nih.gov/pubmed/21982714

Yi, Tau-Mu (1 publication)

Moore TI, Chou C-S, Nie Q, Jeon NL and Yi T-M (2008) Robust Spatial Sensing of Mating Pheromone Gradients by Yeast Cells. PLoS ONE 3(12):e3865. PMID: 19052645. Available at http://dx.doi.org/10.1371%2Fjournal.pone.0003865

Yli-Harja, Olli (2 publications)

Lehmussola A, Ruusuvuori P, Selinummi J, Huttunen H and Yli-Harja O (2007) Computational framework for simulating fluorescence microscope images with cell populations. IEEE Transactions on Medical Imaging (TMI) 26(7):1010-1016. PMID: 17649914. Available at http://www.ncbi.nlm.nih.gov/pubmed/17649914

Ruusuvuori P, Aijo T, Chowdhury S, Garmendia-Torres C, Selinummi J, Birbaumer M, Dudley A, Pelkmans L and Yli-Harja O (2010) Evaluation of methods for detection of fluorescence labeled subcellular objects in microscope images. BMC Bioinformatics 11(1):248. PMID: 20465797. Available at http://dx.doi.org/10.1186/1471-2105-11-248

Yu, Dong (1 publication)

Qian Z, Xuan B, Chapa TJ, Gualberto N and Yu D (2012) Murine cytomegalovirus targets transcription factor ATF4 to exploit the unfolded-protein response. Journal of Virology 86(12):6712-6723. PMID: 22496230. Available at http://jvi.asm.org/content/86/12/6712.short

Yuan, Junying (2 publications)

Pan H, Yu J, Zhang L, Carpenter A, Zhu H, Li L, Ma D and Yuan J (2008) A novel small molecule regulator of guanine nucleotide exchange activity of the ADP-ribosylation factor and golgi membrane trafficking. Journal of Biological Chemistry 283(45):31087-96. PMID: 18799457. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18799457

Lipinski MM, Zheng B, Lu T, Yan Z, Py BF, Ng A, Xavier RJ, Li C, Yankner BA, Scherzer CR and Yuan J (2010) Genome-wide analysis reveals mechanisms modulating autophagy in normal brain aging and in Alzheimer's disease. Proceedings of the National Academy of Sciences 107(32):14164-14169. PMID: 20660724. Available at http://www.ncbi.nlm.nih.gov/pubmed/20660724

Zandstra, Peter (1 publication)

Ungrin M, O’Connor M, Eaves C and Zandstra PW (2007) Phenotypic Analysis of Human Embryonic Stem Cells Current Protocols in Stem Cell Biology:1B.3.1-1B.3.25. PMID: 18785161. Available at http://www.mrw.interscience.wiley.com/emrw/9780470151808/cp/cpsc/article/sc01b03/current/html

Zehbe, Ingeborg (1 publication)

Togtema M, Pichardo S, Jackson R, Lambert PF, Curiel L and Zehbe I (2012) Sonoporation Delivery of Monoclonal Antibodies against Human Papillomavirus 16 E6 Restores p53 Expression in Transformed Cervical Keratinocytes. PLoS ONE 7(11):e50730. PMID: 23226365. Available at http://dx.doi.org/10.1371%2Fjournal.pone.0050730

Zhang, Biliang (1 publication)

Han F, Liang P, Wang F, Zeng L and Zhang B (2011) Automated Analysis of Time-Lapse Imaging of Nuclear Translocation by Retrospective Strategy and Its Application to STAT1 in HeLa Cells. PLoS ONE 6(11):e27454. PMID: 22125613. Available at http://www.ncbi.nlm.nih.gov/pubmed/22125613

Zhang, Jing (1 publication)

Haney SA, LaPan P, Pan J and Zhang J (2006) High-content screening moves to the front of the line. Drug Discovery Today 11(19-20):889-94. PMID: 16997138. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16997138

Ziherl, Primož (1 publication)

Hočevar Brezavšček A, Rauzi M, Leptin M and Ziherl P (2012) A Model of Epithelial Invagination Driven by Collective Mechanics of Identical Cells. Biophysical Journal 103(5):1069-1077. PMID: 23009857. Available at http://www.sciencedirect.com/science/article/pii/S000634951200793X

CellProfiler-citing publications, enumerated alphabetically

1. Adams BR, Golding SE, Rao RR and Valerie K (2010) Dynamic Dependence on ATR and ATM for Double-Strand Break Repair in Human Embryonic Stem Cells and Neural Descendants. PLoS ONE 5(4):e10001. PMID: 20368801. Available at http://www.ncbi.nlm.nih.gov/pubmed/20368801
2. Agathocleous M, Love NK, Randlett O, Harris JJ, Liu JY, Murray AJ and Harris WA (2012) Metabolic differentiation in the embryonic retina. Nature Cell Biology 14(8):859-U180. PMID: 22750943. Available at http://dx.doi.org/10.1038/ncb2531
3. Aghajanian J, Warrell J, Prince SJD, Peng L, Rohn JL and Baum B (2009) Patch-based within-object classification. IEEE International Conference on Computer Vision (ICCV):1125-1132. PMID: none. Available at http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=5459352
4. Akakin HC, Kong H, Elkins C, Hemminger J, Miller B, Ming J, Plocharczyk E, Roth R, Weinberg M, Ziegler R, Lozanski G and Gurcan MN (2012) Automated detection of cells from immunohistochemically-stained tissues: application to Ki-67 nuclei staining. SPIE Proceedings 8315:831503. PMID: none. Available at http://proceedings.spiedigitallibrary.org/proceeding.aspx?articleid=1346012
5. Akimov V, Rigbolt KTG, Nielsen MM and Blagoev B (2011) Characterization of ubiquitination dependent dynamics in growth factor receptor signaling by quantitative proteomics. Molecular BioSystems 7(12):3223-3233. PMID: 21956701. Available at http://www.ncbi.nlm.nih.gov/pubmed/21956701
6. Alam MJ (2012) Open source software, Benefits in the Economy of Bangladesh. International Journal of Computer Applications 42(18):21-24. PMID: none. Available at http://research.ijcaonline.org/volume42/number18/pxc3878099.pdf
7. Albrecht D, Kniemeyer O, Mech F, Gunzer M, Brakhage A and Guthke R (2011) On the way toward systems biology of Aspergillus fumigatus infection. International Journal of Medical Microbiology 301(5):453-459. PMID: 21555243. Available at http://www.ncbi.nlm.nih.gov/pubmed/21555243
8. Ali R, Gooding M, Szilagyi T, Vojnovic B, Christlieb M and Brady M (2011) Automatic segmentation of adherent biological cell boundaries and nuclei from brightfield microscopy images. Machine Vision and Applications:1-15. PMID: none. Available at http://dx.doi.org/10.1007/s00138-011-0337-9
9. Alimperti S, Lei P, Tian J and Andreadis ST (2012) A novel lentivirus for quantitative assessment of gene knockdown in stem cell differentiation. Gene Therapy. PMID: 22241174. Available at http://www.ncbi.nlm.nih.gov/pubmed/22241174
10. Allalou A, van de Rijke FM, Tafrechi RJ, Raap AK and Wahlby C (2007) Image Based Measurements of Single Cell mtDNA Mutation Load. Scandinavian Conference on Image Analysis. PMID: none. Available at http://www.springerlink.com/content/b12548446765l017/
11. Allalou A and Wahlby C (2009) BlobFinder, a tool for fluorescence microscopy image cytometry. Computer Methods and Programs in Biomedicine 94(1):58-65. PMID: 18950895. Available at http://linkinghub.elsevier.com/retrieve/pii/S0169260708002071
12. Allan C, Burel J-M, Moore J, Blackburn C, Linkert M, Loynton S, MacDonald D, Moore WJ, Neves C, Patterson A, Porter M, Tarkowska A, Loranger B, Avondo J, Lagerstedt I, Lianas L, Leo S, Hands K, Hay RT, Patwardhan A, Best C, Kleywegt GJ, Zanetti G and Swedlow JR (2012) OMERO: flexible, model-driven data management for experimental biology. Nature Methods 9(3):245-253. PMID: 22373911. Available at http://www.ncbi.nlm.nih.gov/pubmed/22373911
13. Alworth SV, Watanabe H and Lee JSJ (2010) Teachable, High-Content Analytics for Live-Cell, Phase Contrast Movies. Journal of Biomolecular Screening 15(8):968-977. PMID: 20639505. Available at http://www.ncbi.nlm.nih.gov/pubmed/20639505
14. Angres B (2005) Cell microarrays. Expert Review of Molecular Diagnostics 5(5):769-79. PMID: 16149879. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16149879
15. Appelbaum JS, LaRochelle JR, Smith BA, Balkin DM, Holub JM and Schepartz A (2012) Arginine Topology Controls Escape of Minimally Cationic Proteins from Early Endosomes to the Cytoplasm. Chemistry & Biology 19(7):819-830. PMID: 22840770. Available at http://dx.doi.org/10.1016/j.chembiol.2012.05.022
16. Aydin Z, Murray J, Waterston R and Noble W (2010) Using machine learning to speed up manual image annotation: application to a 3D imaging protocol for measuring single cell gene expression in the developing C. elegans embryo. BMC Bioinformatics 11(1):84. PMID: 20146825 Available at http://www.ncbi.nlm.nih.gov/pubmed/ 20146825
17. Badawi Y, Ramamoorthy P and Shi HL (2012) Hypoxia-inducible factor 1 protects hypoxic astrocytes against glutamate toxicity. Asn Neuro 4(4):231-241. PMID: 22540931. Available at http://dx.doi.org/10.1042/an20120006
18. 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. PMID: 16432521. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16432521
19. Bakal C, Aach J, Church G and Perrimon N (2007) Quantitative morphological signatures define local signaling networks regulating cell morphology. Science 316(5832):1753-6. PMID: 17588932. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17588932
20. Baker M (2010) Cellular imaging: Taking a long, hard look. Nature 466(7310):1137-1140. PMID: 20740018. Available at http://www.ncbi.nlm.nih.gov/pubmed/20740018
21. Ball SG, Shuttleworth A and Kielty CM (2012) Inhibition of Platelet-Derived Growth Factor Receptor Signaling Regulates Oct4 and Nanog Expression, Cell Shape, and Mesenchymal Stem Cell Potency. STEM CELLS 30(3):548-560. PMID: 22213560. Available at http://www.ncbi.nlm.nih.gov/pubmed/22213560
22. Baltus AE, Menke DB, Hu YC, Goodheart ML, Carpenter AE, de Rooij 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):1430-4. PMID: 17115059. Available at http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17115059
23. Baras AS, Solomon A, Davidson R and Moskaluk CA (2011) Loss of VOPP1 overexpression in squamous carcinoma cells induces apoptosis through oxidative cellular injury. Lab Invest 91(8):1170-1180. PMID: 21519330. Available at http://www.ncbi.nlm.nih.gov/pubmed/21519330
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How to cite this software in publications (the project's survival depends on it!)

• CellProfiler for cells:
• Carpenter AE, Jones TR, Lamprecht MR, Clarke C, Kang IH, Friman O, Guertin DA, Chang JH, Lindquist RA, Moffat J, Golland P, Sabatini DM (2006) CellProfiler: image analysis software for identifying and quantifying cell phenotypes. Genome Biology 7:R100. PMID: 17076895 [link to paper at Genome Biology]

or

• Kamentsky L, Jones TR, Fraser A, Bray M, Logan D, Madden K, Ljosa V, Rueden C, Harris GB, Eliceiri K, Carpenter AE (2011) Improved structure, function, and compatibility for CellProfiler: modular high-throughput image analysis software. Bioinformatics 2011/doi. PMID: 21349861 PMCID: PMC3072555
• CellProfiler for other biological images:
• Lamprecht MR, Sabatini DM, Carpenter AE (2007) CellProfiler: free, versatile software for automated biological image analysis. Biotechniques 42(1):71-75. PMID: 17269487 [PDF]
• CellProfiler Analyst software in general:
• Jones TR, Kang IH, Wheeler DB, Lindquist RA, Papallo A, Sabatini DM, Golland P, Carpenter AE (2008) CellProfiler Analyst: data exploration and analysis software for complex image-based screens. BMC Bioinformatics 9(1):482/doi: 10.1186/1471-2105-9-482. PMID: 19014601 PMCID: PMC2614436 [link to paper at BioMed Central].
• CellProfiler Analyst for scoring phenotypes by machine learning:
• Jones TR, Carpenter AE, Lamprecht MR, Moffat J, Silver S, Grenier J, Root D, Golland P, Sabatini DM (2009) Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning. PNAS 106(6):1826-1831/doi: 10.1073/pnas.0808843106. PMID: 19188593 PMCID: PMC2634799 [link to paper at PNAS]

• It's also nice if you cite the website (www.cellprofiler.org) and email us so that we are aware of your publication, but this is much less critical than citing the publications.

• If you used CellProfiler in a publication and would like to include your pipelines as online supplemental information, we are willing to host the pipelines here. Please contact us for more information.