Now showing items 1-20 of 22

    • A BRCA1 deficient-like signature is enriched in breast cancer brain metastases and predicts DNA damage-induced poly (ADP-ribose) polymerase inhibitor sensitivity 

      McMullin, Ryan P; Wittner, Ben S; Yang, Chuanwei; Denton-Schneider, Benjamin R; Hicks, Daniel; Singavarapu, Raj; Moulis, Sharon; Lee, Jeongeun; Akbari, Mohammad R; Narod, Steven A; Aldape, Kenneth D; Steeg, Patricia S; Ramaswamy, Sridhar; Sgroi, Dennis C (BioMed Central, 2014)
      Introduction: There is an unmet clinical need for biomarkers to identify breast cancer patients at an increased risk of developing brain metastases. The objective is to identify gene signatures and biological pathways ...
    • CK1\(\varepsilon\) is Required for Breast Cancers Dependent on \(\beta\)-Catenin Activity 

      Firestein, Ron; Gupta, Piyush; Repich, Kara; Silver, Serena J.; Boehm, Jesse S.; Kim, So Young; Dunn, Ian Frederick; Wardwell, Leslie; Schinzel, Anna; Wittner, Ben; Root, David E.; Ramaswamy, Sridhar; Lander, Eric Steven; Hahn, William C. (Public Library of Science, 2010)
      Background: Aberrant \(\beta\)-catenin signaling plays a key role in several cancer types, notably colon, liver and breast cancer. However approaches to modulate \(\beta\)-catenin activity for therapeutic purposes have ...
    • Cross-Species Array Comparative Genomic Hybridization Identifies Novel Oncogenic Events in Zebrafish and Human Embryonal Rhabdomyosarcoma 

      Chen, Eleanor Y.; Dobrinski, Kimberly P.; Brown, Kim H.; Clagg, Ryan; Edelman, Elena; Ignatius, Myron S.; Chen, Jin Yun Helen; Brockmann, Jillian; Nielsen, G. Petur; Ramaswamy, Sridhar; Keller, Charles; Lee, Charles; Langenau, David M. (Public Library of Science, 2013)
      Human cancer genomes are highly complex, making it challenging to identify specific drivers of cancer growth, progression, and tumor maintenance. To bypass this obstacle, we have applied array comparative genomic hybridization ...
    • Distinct, strict requirements for Gfi-1b in adult bone marrow red cell and platelet generation 

      Foudi, Adlen; Kramer, Daniel J.; Qin, Jinzhong; Ye, Denise; Behlich, Anna-Sophie; Mordecai, Scott; Preffer, Frederic I.; Amzallag, Arnaud; Ramaswamy, Sridhar; Hochedlinger, Konrad; Orkin, Stuart H.; Hock, Hanno (The Rockefeller University Press, 2014)
      The zinc finger transcriptional repressor Gfi-1b is essential for erythroid and megakaryocytic development in the embryo. Its roles in the maintenance of bone marrow erythropoiesis and thrombopoiesis have not been defined. ...
    • dREAM co-operates with insulator-binding proteins and regulates expression at divergently paired genes 

      Korenjak, Michael; Kwon, Eunjeong; Morris, Robert T.; Anderssen, Endre; Amzallag, Arnaud; Ramaswamy, Sridhar; Dyson, Nicholas J. (Oxford University Press, 2014)
      dREAM complexes represent the predominant form of E2F/RBF repressor complexes in Drosophila. dREAM associates with thousands of sites in the fly genome but its mechanism of action is unknown. To understand the genomic ...
    • Dual Suppression of the Cyclin-Dependent Kinase Inhibitors CDKN2C and CDKN1A in Human Melanoma 

      Jalili, Ahmad; Wagner, Christine; Pashenkov, Mikhail; Pathria, Gaurav; Mertz, Kirsten D.; Widlund, Hans R.; Lupien, Mathieu; Brunet, Jean- Philippe; Golub, Todd R.; Stingl, Georg; Fisher, David Erich; Ramaswamy, Sridhar; Wagner, Stephan N. (Oxford University Press, 2012)
      Resistance to BRAFV600E inhibitors is associated with reactivation of mitogen-activated protein kinase (MAPK) signaling at different levels in melanoma. To identify downstream effectors of MAPK signaling that could be used ...
    • Dynamic Chromatin Modification Sustains Epithelial-Mesenchymal Transition following Inducible Expression of Snail-1 

      Javaid, Sarah; Zhang, Jianmin; Anderssen, Endre; Black, Josh C.; Wittner, Ben S.; Tajima, Ken; Ting, David T.; Smolen, Gromoslaw A.; Zubrowski, Matthew; Desai, Rushil; Maheswaran, Shyamala; Ramaswamy, Sridhar; Whetstine, Johnathan R.; Haber, Daniel A. (2014)
      SUMMARY Epithelial-mesenchymal transition (EMT) is thought to contribute to cancer metastasis, but its underlying mechanisms are not well understood. To define early steps in this cellular transformation, we analyzed human ...
    • Genomics of Drug Sensitivity in Cancer (GDSC): a Resource for Therapeutic Biomarker Discovery in Cancer Cells 

      Yang, Wanjuan; Soares, Jorge; Greninger, Patricia; Edelman, Elena J.; Lightfoot, Howard; Forbes, Simon; Bindal, Nidhi; Beare, Dave; Smith, James A.; Thompson, I. Richard; Ramaswamy, Sridhar; Futreal, P. Andrew; Haber, Daniel Arie; Stratton, Michael R.; Benes, Cyril Henri; McDermott, Ultan; Garnett, Mathew J. (Oxford University Press, 2012)
      Alterations in cancer genomes strongly influence clinical responses to treatment and in many instances are potent biomarkers for response to drugs. The Genomics of Drug Sensitivity in Cancer (GDSC) database (www.cancerRxgene.org) ...
    • Integrative Genome Comparison of Primary and Metastatic Melanomas 

      Kabbarah, Omar; Nogueira, Cristina; Feng, Bin; Bosenberg, Marcus; Scott, Kenneth L.; Xiao, Yonghong; Cordon-Cardo, Carlos; Wagner, Stephan N.; Brennan, Cameron; Nazarian, Rosalynn; Wu, Min; Kwong, Lawrence Noc-Woon; Granter, Scott R.; Ramaswamy, Sridhar; Golub, Todd R.; Duncan, Lyn M.; Chin, Lynda (Public Library of Science, 2010)
      A cardinal feature of malignant melanoma is its metastatic propensity. An incomplete view of the genetic events driving metastatic progression has been a major barrier to rational development of effective therapeutics and ...
    • Landscape of Targeted Anti-Cancer Drug Synergies in Melanoma Identifies a Novel BRAF-VEGFR/PDGFR Combination Treatment 

      Friedman, Adam A.; Amzallag, Arnaud; Pruteanu-Malinici, Iulian; Baniya, Subash; Cooper, Zachary A.; Piris, Adriano; Hargreaves, Leeza; Igras, Vivien; Frederick, Dennie T.; Lawrence, Donald P.; Haber, Daniel A.; Flaherty, Keith T.; Wargo, Jennifer A.; Ramaswamy, Sridhar; Benes, Cyril H.; Fisher, David E. (Public Library of Science, 2015)
      A newer generation of anti-cancer drugs targeting underlying somatic genetic driver events have resulted in high single-agent or single-pathway response rates in selected patients, but few patients achieve complete responses ...
    • A microfluidic device for label-free, physical capture of circulating tumor cell-clusters 

      Sarioglu, A. Fatih; Aceto, Nicola; Kojic, Nikola; Donaldson, Maria C.; Zeinali, Mahnaz; Hamza, Bashar; Engstrom, Amanda; Zhu, Huili; Sundaresan, Tilak K.; Miyamoto, David T.; Luo, Xi; Bardia, Aditya; Wittner, Ben S.; Ramaswamy, Sridhar; Shioda, Toshi; Ting, David T.; Stott, Shannon L.; Kapur, Ravi; Maheswaran, Shyamala; Haber, Daniel A.; Toner, Mehmet (2015)
      Cancer cells metastasize through the bloodstream either as single migratory circulating tumor cells (CTCs) or as multicellular groupings (CTC-clusters). Existing technologies for CTC enrichment are designed primarily to ...
    • Notch signaling expands a pre-malignant pool of T-cell acute lymphoblastic leukemia clones without affecting leukemia-propagating cell frequency 

      Blackburn, Jessica S.; Liu, Sali; Raiser, Dave Michael; Martinez, Sarah A.; Feng, Hui; Meeker, Nathan D.; Gentry, Jeffery; Neuberg, Donna S.; Look, A. Thomas; Ramaswamy, Sridhar; Bernards, Andre; Trede, Nikolaus S.; Langenau, David M. (2012)
      NOTCH1 pathway activation contributes to the pathogenesis of over 60% of T-cell acute lymphoblastic leukemia (T-ALL). While Notch is thought to exert the majority of its effects through transcriptional activation of Myc, ...
    • RB loss in resistant EGFR mutant lung adenocarcinomas that transform to small-cell lung cancer 

      Niederst, Matthew J.; Sequist, Lecia V.; Poirier, John T.; Mermel, Craig H.; Lockerman, Elizabeth L.; Garcia, Angel R.; Katayama, Ryohei; Costa, Carlotta; Ross, Kenneth N.; Moran, Teresa; Howe, Emily; Fulton, Linnea E.; Mulvey, Hillary E.; Bernardo, Lindsay A.; Mohamoud, Farhiya; Miyoshi, Norikatsu; VanderLaan, Paul A.; Costa, Daniel B.; Jänne, Pasi A.; Borger, Darrell R.; Ramaswamy, Sridhar; Shioda, Toshi; Iafrate, Anthony J.; Getz, Gad; Rudin, Charles M.; Mino-Kenudson, Mari; Engelman, Jeffrey A. (Nature Pub. Group, 2015)
      Tyrosine kinase inhibitors are effective treatments for non-small-cell lung cancers (NSCLCs) with epidermal growth factor receptor (EGFR) mutations. However, relapse typically occurs after an average of 1 year of continuous ...
    • RNA Sequencing of Pancreatic Circulating Tumour Cells Implicates WNT Signaling in Metastasis 

      Yu, Min; Ting, David Tsai; Stott, Shannon; Wittner, Ben; Ozsolak, Fatih; Paul, Suchismita; Ciciliano, Jordan C.; Smas, Malgorzata E.; Winokur, Daniel; Gilman, Anna J.; Ulman, Matthew J.; Xega, Kristina; Contino, Gianmarco; Alagesan, Brinda; Brannigan, Brian W.; Milos, Patrice M.; Ryan, David P.; Sequist, Lecia VanDam; Bardeesy, Nabeel; Ramaswamy, Sridhar; Toner, Mehmet; Maheswaran, Shyamala; Haber, Daniel Arie (2012)
      Circulating tumour cells (CTCs) shed into blood from primary cancers include putative precursors that initiate distal metastases. While these cells are extraordinarily rare, they may identify cellular pathways contributing ...
    • SETD1A modulates cell cycle progression through a miRNA network that regulates p53 target genes 

      Tajima, Ken; Yae, Toshifumi; Javaid, Sarah; Tam, Oliver; Comaills, Valentine; Morris, Robert; Wittner, Ben S.; Liu, Mingzhu; Engstrom, Amanda; Takahashi, Fumiyuki; Black, Joshua C.; Ramaswamy, Sridhar; Shioda, Toshihiro; Hammell, Molly; Haber, Daniel A.; Whetstine, Johnathan R.; Maheswaran, Shyamala (Nature Pub. Group, 2015)
      Expression of the p53-inducible antiproliferative gene BTG2 is suppressed in many cancers in the absence of inactivating gene mutations, suggesting alternative mechanisms of silencing. Using a shRNA screen targeting 43 ...
    • A Shared Role for RBF1 and dCAP-D3 in the Regulation of Transcription with Consequences for Innate Immunity 

      Longworth, Michelle S.; Walker, James Anthony; Anderssen, Endre; Moon, Nam-Sung; Gladden, Andrew; Heck, Margarete M. S.; Ramaswamy, Sridhar; Dyson, Nicholas John (Public Library of Science, 2012)
      Previously, we discovered a conserved interaction between RB proteins and the Condensin II protein CAP-D3 that is important for ensuring uniform chromatin condensation during mitotic prophase. The Drosophila melanogaster ...
    • Single-Cell RNA Sequencing Identifies Extracellular Matrix Gene Expression by Pancreatic Circulating Tumor Cells 

      Ting, David T.; Wittner, Ben S.; Ligorio, Matteo; Jordan, Nicole Vincent; Shah, Ajay M.; Miyamoto, David T.; Aceto, Nicola; Bersani, Francesca; Brannigan, Brian W.; Xega, Kristina; Ciciliano, Jordan C.; Zhu, Huili; MacKenzie, Olivia C.; Trautwein, Julie; Arora, Kshitij S.; Shahid, Mohammad; Ellis, Haley L.; Qu, Na; Bardeesy, Nabeel; Rivera, Miguel N.; Deshpande, Vikram; Ferrone, Cristina R.; Kapur, Ravi; Ramaswamy, Sridhar; Shioda, Toshi; Toner, Mehmet; Maheswaran, Shyamala; Haber, Daniel A. (2014)
      SUMMARY Circulating tumor cells (CTCs) are shed from primary tumors into the bloodstream, mediating the hematogenous spread of cancer to distant organs. To define their composition, we compared genome-wide expression ...
    • SIRT6 Is Required for Normal Retinal Function 

      Silberman, Dafne M.; Ross, Kenneth; Sande, Pablo H.; Kubota, Shunsuke; Ramaswamy, Sridhar; Apte, Rajendra S.; Mostoslavsky, Raul (Public Library of Science, 2014)
      The retina is one of the major energy consuming tissues within the body. In this context, synaptic transmission between light-excited rod and cone photoreceptors and downstream ON-bipolar neurons is a highly demanding ...
    • Small molecules facilitate rapid and synchronous iPSC generation 

      Bar-Nur, Ori; Brumbaugh, Justin; Verheul, Cassandra; Apostolou, Effie; Pruteanu-Malinici, Iulian; Walsh, Ryan M.; Ramaswamy, Sridhar; Hochedlinger, Konrad (2014)
      The reprogramming of somatic cells into induced pluripotent stem cells (iPSCs) upon overexpression of OCT4, KLF4, SOX2, and c-MYC (OKSM) provides a powerful system to interrogate basic mechanisms of cell fate change. ...
    • Systems-Level Modeling of Cancer-Fibroblast Interaction 

      Wadlow, Raymond C; Wittner, Ben; Finley, S. Aidan; Bergquist, Henry; Upadhyay, Rabi; Finn, Stephen; Loda, Massimo; Mahmood, Umar; Ramaswamy, Sridhar (Public Library of Science, 2009)
      Cancer cells interact with surrounding stromal fibroblasts during tumorigenesis, but the complex molecular rules that govern these interactions remain poorly understood thus hindering the development of therapeutic strategies ...