Now showing items 1-9 of 9

    • The CHR Promoter Element Controls Cell Cycle-Dependent Gene Transcription and Binds the DREAM and MMB Complexes 

      Müller, Gerd A.; Quaas, Marianne; Schümann, Michael; Krause, Eberhard; Padi, Megha; Fischer, Martin; Litovchick, Larisa; DeCaprio, James A.; Engeland, Kurt (Oxford University Press, 2011)
      Cell cycle-dependent gene expression is often controlled on the transcriptional level. Genes like \(cyclin B, CDC2\) and \(CDC25C\) are regulated by cell cycle-dependent element (CDE) and cell cycle genes homology region ...
    • Identification of FAM111A as an SV40 Host Range Restriction and Adenovirus Helper Factor 

      Fine, Debrah A.; Rozenblatt-Rosen, Orit; Padi, Megha; Korkhin, Anna; James, Robert L.; Adelmant, Guillaume; Yoon, Rosa; Guo, Luxuan; Berrios, Christian Jose; Zhang, Ying; Calderwood, Michael A.; Velmurgan, Soundarapandian; Cheng, Jingwei; Marto, Jarrod; Hill, David E.; Cusick, Michael; Vidal, Marc; Florens, Laurence; Washburn, Michael P.; Litovchick, Larisa; DeCaprio, James A. (Public Library of Science, 2012)
      The small genome of polyomaviruses encodes a limited number of proteins that are highly dependent on interactions with host cell proteins for efficient viral replication. The SV40 large T antigen (LT) contains several ...
    • Integrating transcriptional and protein interaction networks to prioritize condition-specific master regulators 

      Padi, Megha; Quackenbush, John (BioMed Central, 2015)
      Background: Genome-wide libraries of yeast deletion strains have been used to screen for genes that drive phenotypes such as stress response. A surprising observation emerging from these studies is that the genes with the ...
    • Integration of TP53, DREAM, MMB-FOXM1 and RB-E2F target gene analyses identifies cell cycle gene regulatory networks 

      Fischer, Martin; Grossmann, Patrick; Padi, Megha; DeCaprio, James A. (Oxford University Press, 2016)
      Cell cycle (CC) and TP53 regulatory networks are frequently deregulated in cancer. While numerous genome-wide studies of TP53 and CC-regulated genes have been performed, significant variation between studies has made it ...
    • Interpreting Cancer Genomes Using Systematic Host Perturbations by Tumour Virus Proteins 

      Rozenblatt-Rosen, Orit; Deo, Rahul C.; Dricot, Amélie; Askenazi, Manor; Tavares, Maria; Abderazzaq, Fieda; Byrdsong, Danielle; Correll, Mick; Fan, Changyu; Feltkamp, Mariet C.; Franchi, Rachel; Garg, Brijesh K.; Gulbahce, Natali; Hao, Tong; Korkhin, Anna; Litovchick, Larisa; Mar, Jessica C.; Pak, Theodore R.; Rabello, Sabrina; Rubio, Renee; Shen, Yun; Tasan, Murat; Wanamaker, Shelly; Roecklein-Canfield, Jennifer; Johannsen, Eric; Barabási, Albert-László; Padi, Megha; Adelmant, Guillaume; Calderwood, Michael A; Rolland, Thomas; Grace, Miranda; Pevzner, Samuel; Carvunis, Anne-Ruxandra; Chen, Alyce Aura; Cheng, Jingwei; Duarte, Melissa; Ficarro, Scott; Holthaus, Amy Marie; James, Robert; Singh, Saurav; Spangle, Jennifer Marie; Webber, James T.; Beroukhim, Rameen; Kieff, Elliott D.; Cusick, Michael; Hill, David E.; Munger, Karl; Marto, Jarrod; Quackenbush, John; Roth, Frederick Phillip; DeCaprio, James A.; Vidal, Marc (Nature Publishing Group, 2012)
      Genotypic differences greatly influence susceptibility and resistance to disease. Understanding genotype-phenotype relationships requires that phenotypes be viewed as manifestations of network properties, rather than simply ...
    • Merkel Cell Polyomavirus Small T Antigen Promotes Pro-Glycolytic Metabolic Perturbations Required for Transformation 

      Berrios, Christian; Padi, Megha; Keibler, Mark A.; Park, Donglim Esther; Molla, Vadim; Cheng, Jingwei; Lee, Soo Mi; Stephanopoulos, Gregory; Quackenbush, John; DeCaprio, James A. (Public Library of Science, 2016)
      Merkel cell polyomavirus (MCPyV) is an etiological agent of Merkel cell carcinoma (MCC), a highly aggressive skin cancer. The MCPyV small tumor antigen (ST) is required for maintenance of MCC and can transform normal cells. ...
    • Orientiholes 

      Denef, Frederik; Esole, Mboyo; Padi, Megha (Springer, 2010)
      By T-dualizing space-filling D-branes in 4d IIB orientifold compactifications along the three non-internal spatial directions, we obtain black hole bound states living in a universe with a gauged spatial reflection symmetry. ...
    • Viral Perturbations of Host Networks Reflect Disease Etiology 

      Gulbahce, Natali; Yan, Han; Dricot, Amélie; Padi, Megha; Byrdsong, Danielle; Franchi, Rachel; Lee, Deok-Sun; Rozenblatt-Rosen, Orit; Mar, Jessica C.; Calderwood, Michael A; Baldwin, Amy; Zhao, Bo; Santhanam, Balaji; Braun, Pascal; Simonis, Nicolas; Huh, Kyung-Won; Hellner, Karin; Grace, Miranda; Chen, Alyce Aura; Rubio, Renee; Marto, Jarrod; Christakis, Nicholas Alexander; Kieff, Elliott D.; Roth, Frederick Phillip; Roecklein-Canfield, Jennifer; DeCaprio, James A.; Cusick, Michael; Quackenbush, John; Hill, David E.; Münger, Karl; Vidal, Marc; Barabási, Albert-László (Public Library of Science, 2012)
      Many human diseases, arising from mutations of disease susceptibility genes (genetic diseases), are also associated with viral infections (virally implicated diseases), either in a directly causal manner or by indirect ...
    • Warped \(AdS_3\) Black Holes 

      Anninos, Dionysios; Li, Wei; Padi, Megha; Song, Wei; Strominger, Andrew E. (Institute of Physics, 2009)
      Three dimensional topologically massive gravity (TMG) with a negative cosmological constant \(-\ell^{-2}\) and positive Newton constant \(G\) admits an \(AdS_3\) vacuum solution for any value of the graviton mass \(\mu\). ...