Now showing items 1-20 of 20

    • The Chromatin Remodeling Factor CHD5 Is a Transcriptional Repressor of WEE1 

      Quan, Jinhua; Adelmant, Guillaume; Marto, Jarrod A.; Look, A. Thomas; Yusufzai, Timur (Public Library of Science, 2014)
      Loss of the chromatin remodeling ATPase CHD5 has been linked to the progression of neuroblastoma tumors, yet the underlying mechanisms behind the tumor suppressor role of CHD5 are unknown. In this study, we purified the ...
    • The Cyclophilin A-CD147 complex promotes bone marrow colonization of B-cell malignancies: implications for therapy 

      Zhu, Di; Wang, Zhongqiu; Zhao, Jian-Jun; Calimeri, Teresa; Meng, Jiang; Hideshima, Teru; Fulciniti, Mariateresa; Kang, Yue; Ficarro, Scott; Tai, Yu-Tzu; Hunter, Zachary; McMilin, Douglas; Tong, Haoxuan; Mitsiades, Constantine S.; Wu, Catherine; Treon, Steven; Dorfman, David M.; Pinkus, Geraldine; Munshi, Nikhil; Tassone, Pierfrancesco; Marto, Jarrod; Anderson, Kenneth; Carrasco, Ruben D. (2015)
      B-cell malignancies frequently colonizes the bone marrow (BM). The mechanisms responsible for this preferential homing are not entirely known. Using multiple myeloma (MM) as a model of a terminally differentiated B-cell ...
    • Dephosphorylation of DBC1 by Protein Phosphatase 4 Is Important for p53-Mediated Cellular Functions 

      Lee, Jihye; Adelmant, Guillaume; Marto, Jarrod A.; Lee, Dong-Hyun (Korean Society for Molecular and Cellular Biology, 2015)
      Deleted in breast cancer-1 (DBC1) contributes to the regulation of cell survival and apoptosis. Recent studies demonstrated that DBC is phosphorylated at Thr454 by ATM/ATR kinases in response to DNA damage, which is a ...
    • Discovering Causal Signaling Pathways Through Gene-Expression Patterns 

      Parikh, Jignesh R.; Klinger, Bertram; Xia, Yu; Marto, Jarrod; Blüthgen, Nils (Oxford University Press, 2010)
      High-throughput gene-expression studies result in lists of differentially expressed genes. Most current meta-analyses of these gene lists include searching for significant membership of the translated proteins in various ...
    • Elafin drives poor outcome in high grade serous ovarian cancers and basal-like breast tumors 

      Labidi-Galy, S. Intidhar; Clauss, Adam; Ng, Vivian; Duraisamy, Sekhar; Elias, Kevin M.; Piao, Hui-Ying; Bilal, Erhan; Davidowitz, Rachel A.; Lu, Yiling; Badalian-Very, Gayane; Györffy, Balázs; Kang, Un-Beom; Ficarro, Scott B.; Ganesan, Shridar; Mills, Gordon B.; Marto, Jarrod A.; Drapkin, Ronny (2014)
      High grade serous ovarian carcinoma (HGSOC) and basal-like breast cancer (BLBC) share many features including TP53 mutations, genomic instability and poor prognosis. We recently reported that Elafin is overexpressed by ...
    • Genome-scale Proteome Quantification by DEEP SEQ Mass Spectrometry 

      Zhou, Feng; Lu, Yu; Ficarro, Scott B.; Adelmant, Guillaume; Jiang, Wenyu; Luckey, C. John; Marto, Jarrod A. (2013)
      Advances in chemistry and massively parallel detection underlie DNA sequencing platforms that are poised for application in personalized medicine. In stark contrast, systematic generation of protein-level data lags well-behind ...
    • 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 ...
    • 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 ...
    • Multi-Edge Gene Set Networks Reveal Novel Insights into Global Relationships between Biological Themes 

      Parikh, Jignesh R.; Xia, Yu; Marto, Jarrod (Public Library of Science, 2012)
      Curated gene sets from databases such as KEGG Pathway and Gene Ontology are often used to systematically organize lists of genes or proteins derived from high-throughput data. However, the information content inherent to ...
    • multiplierz: An Extensible API Based Desktop Environment for Proteomics Data Analysis 

      Parikh, Jignesh R; Askenazi, Manor; Ficarro, Scott; Cashorali, Tanya; Webber, James T; Blank, Nathaniel C; Zhang, Yi; Marto, Jarrod (BioMed Central, 2009)
      Background: Efficient analysis of results from mass spectrometry-based proteomics experiments requires access to disparate data types, including native mass spectrometry files, output from algorithms that assign peptide ...
    • Mutations in G protein β subunits promote transformation and kinase inhibitor resistance 

      Yoda, Akinori; Adelmant, Guillaume; Tamburini, Jerome; Chapuy, Bjoern; Shindoh, Nobuaki; Yoda, Yuka; Weigert, Oliver; Kopp, Nadja; Wu, Shuo-Chieh; Kim, Sunhee S; Liu, Huiyun; Tivey, Trevor; Christie, Amanda L; Elpek, Kutlu G; Card, Joseph; Gritsman, Kira; Gotlib, Jason; Deininger, Michael W; Makishima, Hideki; Turley, Shannon J.; Javidi-Sharifi, Nathalie; Maciejewski, Jaroslaw P; Jaiswal, Siddhartha; Ebert, Benjamin L.; Rodig, Scott J.; Tyner, Jeffrey W; Marto, Jarrod; Weinstock, David Marc; Lane, Andrew Alan (Nature Publishing Group, 2014)
      Activating mutations in genes encoding G protein α (Gα) subunits occur in 4-5% of all human cancers, but oncogenic alterations in Gβ subunits have not been defined. Here we demonstrate that recurrent mutations in the Gβ ...
    • Pharmacological Targeting of the Pseudokinase Her3 

      Xie, Ting; Lim, Sang Min; Westover, Kenneth D.; Dodge, Michael E.; Ercan, Dalia; Ficarro, Scott B.; Udayakumar, Durga; Gurbani, Deepak; Tae, Hyun Seop; Riddle, Steven M.; Sim, Taebo; Marto, Jarrod A.; Jänne, Pasi A.; Crews, Craig M.; Gray, Nathanael S. (2014)
      Her3 (ErbB3) belongs to the epidermal growth factor receptor tyrosine kinases and is well credentialed as an anti-cancer target but is thought to be “undruggable” using ATP-competitive small molecules because it lacks ...
    • Production of a Reference Transcriptome and Transcriptomic Database (PocilloporaBase) for the Cauliflower Coral, Pocillopora damicornis 

      Traylor-Knowles, Nikki; Granger, Brian R; Lubinski, Tristan J; Parikh, Jignesh R; Garamszegi, Sara; Xia, Yu; Marto, Jarrod; Kaufman, Les; Finnerty, John R (BioMed Central, 2011)
      Background: Motivated by the precarious state of the world's coral reefs, there is currently a keen interest in coral transcriptomics. By identifying changes in coral gene expression that are triggered by particular ...
    • Proteomic Landscape of Tissue-Specific Cyclin E Functions in Vivo 

      Odajima, Junko; Saini, Siddharth; Jung, Piotr; Ndassa-Colday, Yasmine; Ficaro, Scott; Geng, Yan; Marco, Eugenio; Michowski, Wojciech; Wang, Yaoyu E.; DeCaprio, James A.; Litovchick, Larisa; Marto, Jarrod; Sicinski, Piotr (Public Library of Science, 2016)
      E-type cyclins (cyclins E1 and E2) are components of the cell cycle machinery that has been conserved from yeast to humans. The major function of E-type cyclins is to drive cell division. It is unknown whether in addition ...
    • An RS Motif within the Epstein-Barr Virus BLRF2 Tegument Protein Is Phosphorylated by SRPK2 and Is Important for Viral Replication 

      Duarte, Melissa; Wang, Lili; Calderwood, Michael A; Adelmant, Guillaume; Ohashi, Makoto; Roecklein-Canfield, Jennifer; Marto, Jarrod; Hill, David E.; Deng, Hongyu; Johannsen, Eric (Public Library of Science, 2013)
      Epstein-Barr virus (EBV) is a gammaherpesvirus that causes infectious mononucleosis, B cell lymphomas, and nasopharyngeal carcinoma. Many of the genes required for EBV virion morphogenesis are found in all herpesviruses, ...
    • Structure and mechanism of activity-based inhibition of the EGF-Receptor by Mig6 

      Park, Eunyoung; Kim, Nayoung; Ficarro, Scott B.; Zhang, Yi; Lee, Byung Il; Cho, Ahye; Kim, Kihong; Park, Angela K.J.; Park, Woong-Yang; Murray, Bradley; Meyerson, Matthew; Beroukhim, Rameen; Marto, Jarrod A.; Cho, Jeonghee; Eck, Michael J. (2016)
      Mig6 is a feedback inhibitor that directly binds, inhibits and drives internalization of ErbB-family receptors. Mig6 selectivity targets activated receptors. Here we find that the EGF receptor phosphorylates Mig6 on Tyr394, ...
    • Structure of a pseudokinase domain switch that controls oncogenic activation of Jak kinases 

      Toms, Angela V.; Deshpande, Anagha; McNally, Randall; Jeong, Youngjee; Rogers, Julia M.; Kim, Chae Un; Gruner, Sol M.; Ficarro, Scott B.; Marto, Jarrod A.; Sattler, Martin; Griffin, James D.; Eck, Michael J. (2013)
      The V617F mutation in the Jak2 pseudokinase domain causes myeloproliferative neoplasms, and the equivalent mutation in Jak1 (V658F) is found in T-cell leukemias. Crystal structures of wild type and V658F mutant human Jak1 ...
    • Targeting transcription regulation in cancer with a covalent CDK7 inhibitor 

      Kwiatkowski, Nicholas; Zhang, Tinghu; Rahl, Peter B; Abraham, Brian J; Reddy, Jessica; Ficarro, Scott B; Dastur, Anahita; Amzallag, Arnaud; Ramaswamy, Sridhar; Tesar, Bethany; Jenkins, Christopher R; Hannett, Nancy M; McMillin, Douglas; Sanda, Takaomi; Sim, Taebo; Kim, Nam Doo; Look, Thomas; Mitsiades, Constantine; Weng, Andrew P; Brown, Jennifer R; Benes, Cyril H.; Marto, Jarrod A; Young, Richard A; Gray, Nathanael S. (2014)
      Tumor oncogenes include transcription factors that co-opt the general transcriptional machinery to sustain the oncogenic state1, but direct pharmacological inhibition of transcription factors has thus far proven difficult2. ...
    • Viral Mimicry of Cdc2/cyclin-dependent Kinase 1 Mediates Disruption of Nuclear Lamina during Human Cytomegalovirus Nuclear Egress 

      Hamirally, Sofia; Kamil, Jeremy P.; Ndassa-Colday, Yasmine M.; Lin, Alison J.; Jahng, Wan Jin; Baek, Moon-Chang; Noton, Sarah; Silva, Laurie A.; Simpson-Holley, Martha; Knipe, David Mahan; Golan, David Eric; Marto, Jarrod; Coen, Donald Mark (Public Library of Science, 2009)
      The nuclear lamina is a major obstacle encountered by herpesvirus nucleocapsids in their passage from the nucleus to the cytoplasm (nuclear egress). We found that the human cytomegalovirus (HCMV)-encoded protein kinase ...
    • 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 ...