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2011 Journal Article Epstein-Barr virus exploits intrinsic B-lymphocyte transcription programs to achieve immortal cell growthZhao, Bo, Zou, James, Wang, Hongfang, Johannsen, Eric, Peng, Chih-Wen, Quackenbush, John, Mar, Jessica C., Morton, Cynthia Casson, Freedman, Matthew L., Blacklow, Stephen C., Aster, Jon C., Bernstein, Bradley E. and Kieff, Elliott (2011). Epstein-Barr virus exploits intrinsic B-lymphocyte transcription programs to achieve immortal cell growth. Proceedings of the National Academy of Sciences of the United States of America, 108 (36), 14902-14907. doi: 10.1073/pnas.1108892108 |
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2011 Journal Article Variance of gene expression identifies altered network constraints in neurological diseaseMar, Jessica C., Matigian, Nicholas A., Mackay-Sim, Alan, Mellick, George D., Sue, Carolyn M., Silburn, Peter A., McGrath, John J., Quackenbush, John and Wells, Christine A. (2011). Variance of gene expression identifies altered network constraints in neurological disease. PLoS Genetics, 7 (8) e1002207, e1002207. doi: 10.1371/journal.pgen.1002207 |
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2011 Journal Article Canonical NF-κB activation is essential for Epstein-Barr virus latent membrane protein 1 TES2/CTAR2 gene regulationGewurz, Benjamin E., Mar, Jessica C., Padi, Megha, Zhao, Bo, Shinners, Nicholas P., Takasaki, Kaoru, Bedoya, Edward, Zou, James Y., Cahir-Mcfarland, Ellen, Quackenbush, John and Kieff, Elliott (2011). Canonical NF-κB activation is essential for Epstein-Barr virus latent membrane protein 1 TES2/CTAR2 gene regulation. Journal of Virology, 85 (13), 6764-6773. doi: 10.1128/JVI.00422-11 |
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2011 Journal Article Defining an informativeness metric for clustering gene expression dataMar, Jessica C., Wells, Christine A. and Quackenbush, John (2011). Defining an informativeness metric for clustering gene expression data. Bioinformatics, 27 (8) btr074, 1094-1100. doi: 10.1093/bioinformatics/btr074 |
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2011 Journal Article Epstein-Barr virus nuclear antigen 3C regulated genes in lymphoblastoid cell linesZhao, Bo, Mar, Jessica C., Maruo, Seiji, Lee, Sungwook, Gewurz, Benjamin E., Johannsen, Eric, Holton, Kristina, Rubio, Renee, Takada, Kenzo, Quackenbush, John and Kieff, Elliott (2011). Epstein-Barr virus nuclear antigen 3C regulated genes in lymphoblastoid cell lines. Proceedings of the National Academy of Sciences, 108 (1), 337-342. doi: 10.1073/pnas.1017419108 |
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2010 Journal Article Therapeutic implications of GIPC1 silencing in cancerChittenden, Thomas W., Pak, Jane, Rubio, Renee, Cheng, Hailing, Holton, Kristina, Prendergast, Niall, Glinskii, Vladimir, Cai, Yi, Culhane, Aedin, Bentink, Stefan, Schwede, Mathew, Mar, Jessica C., Howe, Eleanor A., Aryee, Martin, Sultana, Razvan, Lanahan, Anthony A., Taylor, Jennifer M., Holmes, Chris, Hahn, William C., Zhao, Jean J., Iglehart, J. Dirk and Quackenbush, John (2010). Therapeutic implications of GIPC1 silencing in cancer. PLoS ONE, 5 (12) e15581, e15581. doi: 10.1371/journal.pone.0015581 |
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2009 Journal Article Decomposition of gene expression state space trajectoriesMar, Jessica C. and Quackenbush, John (2009). Decomposition of gene expression state space trajectories. PLoS Computational Biology, 5 (12) e1000626, e1000626. doi: 10.1371/journal.pcbi.1000626 |
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2009 Journal Article HPV16 E7 oncogene expression in normal human epithelial cells causes molecular changes indicative of an epithelial to mesenchymal transitionHellner, Karin, Mar, Jessica, Fang, Frank, Quackenbush, John and Münger, Karl (2009). HPV16 E7 oncogene expression in normal human epithelial cells causes molecular changes indicative of an epithelial to mesenchymal transition. Virology, 391 (1), 57-63. doi: 10.1016/j.virol.2009.05.036 |
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2009 Journal Article The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell lineSuzuki, H, Forrest, ARR, van Nimwegen, E, Daub, CO, Balwierz, PJ, Irvine, KM, Lassmann, T, Ravasi, T, Hasegawa, Y, de Hoon, MJL, Katayama, S, Schroder, K, Carninci, P, Tomaru, Y, Kanamori-Katayama, M, Kubosaki, A, Akalin, A, Ando, Y, Arner, E, Asada, M, Asahara, H, Bailey, T, Bajic, VB, Bauer, D, Beckhouse, AG, Bertin, N, Bjorkegren, J, Brombacher, F, Bulger, E ... Riken Omics Science Center (2009). The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nature Genetics, 41 (5), 553-562. doi: 10.1038/ng.375 |
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2009 Journal Article Data-driven normalization strategies for high-throughput quantitative RT-PCRMar, Jessica C., Kimura, Yasumasa, Schroder, Kate, Irvine, Katherine M., Hayashizaki, Yoshihide, Suzuki, Harukazu, Hume, David and Quackenbush, John (2009). Data-driven normalization strategies for high-throughput quantitative RT-PCR. BMC Bioinformatics, 10 (1) 110, 110.1-110.10. doi: 10.1186/1471-2105-10-110 |
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2007 Journal Article Further Evidence for BRCA1 Communication with the Inactive X ChromosomeSilver, Daniel P., Dimitrov, Stoil D., Feunteun, Jean, Gelman, Rebecca, Drapkin, Ronny, Lu, Shihua D., Shestakova, Elena, Velmurugan, Soundarapandian, DeNunzio, Nicholas, Dragomir, Serban, Mar, Jessica, Liu, Xiaoling, Rottenberg, Sven, Jonkers, Jos, Ganesan, Shridar and Livingston, David M. (2007). Further Evidence for BRCA1 Communication with the Inactive X Chromosome. Cell, 128 (5), 991-1002. doi: 10.1016/j.cell.2007.02.025 |
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2006 Journal Article Inferring steady state single-cell gene expression distributions from analysis of mesoscopic samplesMar, Jessica C., Rubio, Renee and Quackenbush, John (2006). Inferring steady state single-cell gene expression distributions from analysis of mesoscopic samples. Genome Biology, 7 (12) R119. doi: 10.1186/gb-2006-7-12-r119 |
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2006 Journal Article Immunogenetics of CD4 lymphocyte count recovery during antiretroviral therapy: An AIDS clinical trials group studyHaas, David W., Geraghty, Daniel E., Andersen, Janet, Mar, Jessica, Motsinger, Alison A., D'Aquila, Richard T., Unutmaz, Derya, Benson, Constance A., Ritchie, Marylyn D. and Landay, Alan (2006). Immunogenetics of CD4 lymphocyte count recovery during antiretroviral therapy: An AIDS clinical trials group study. Journal of Infectious Diseases, 194 (8), 1098-1107. doi: 10.1086/507313 |
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2005 Journal Article Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violationMar, Jessica C., Harlow, Timothy J . and Ragan, Mark A. (2005). Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation. BMC Evolutionary Biology, 5 (1) 8, 8.1-8.20. doi: 10.1186/1471-2148-5-8 |
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2003 Journal Article Model-based clustering in gene expression microarrays: an application to breast cancer dataMar, J.C. and McLachlan, G.J. (2003). Model-based clustering in gene expression microarrays: an application to breast cancer data. International Journal of Software Engineering and Knowledge Engineering, 13 (6), 579-592. doi: 10.1142/S0218194003001482 |
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2003 Journal Article Model-based clustering in gene expression microarrays: an application to breast cancer dataMar, J. C. and McLachlan, G. J. (2003). Model-based clustering in gene expression microarrays: an application to breast cancer data. International Journal of Software Engineering And Knowledge Engineering, 13 (6), 579-592. doi: 10.1142/S0218194003001482 |
