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Browsing MIT Open Access Articles by Title

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  • Bernardara, M.; Trigo Neri Tabuada, Goncalo Jorge (Turpion, 2016-07)
    Conjectures of Beilinson-Bloch type predict that the low-degree rational Chow groups of intersections of quadrics are one-dimensional. This conjecture was proved by Otwinowska in [20]. By making use of homological projective ...
  • Fox, Jacob; Lee, Choongbum; Sudakov, Benny (Springer-Verlag, )
    For a graph G, let (G) denote its chromatic number and (G) denote the order of the largest clique subdivision in G. Let H(n) be the maximum of (G)= (G) over all n-vertex graphs G. A famous conjecture of Haj os from ...
  • Alpatov, Roman; Nakamoto-Kinoshita, Mika; Blanco, Andres; Chen, Shuzhen; Stützer, Alexandra; Armache, Karim J.; Simon, Matthew D.; Xu, Chao; Ali, Muzaffar; Murn, Jernej; Prisic, Sladjana; Kutateladze, Tatiana G.; Vakoc, Christopher R.; Min, Jinrong; Kingston, Robert E.; Fischle, Wolfgang; Warren, Stephen T.; Shi, Yang; Lesch, Bluma; Page, David C (Elsevier, 2014-05)
    Fragile X syndrome, a common form of inherited intellectual disability, is caused by loss of the fragile X mental retardation protein FMRP. FMRP is present predominantly in the cytoplasm, where it regulates translation of ...
  • Rege, Mayuri; Subramanian, Vidya; Zhu, Chenchen; Hsieh, Tsung-Han S.; Weiner, Assaf; Friedman, Nir; Steinmetz, Lars M.; Rando, Oliver J.; Peterson, Craig L.; Clauder-Munster, Sandra; Boyer, Laurie (Elsevier, 2015-11)
    The histone variant H2A.Z is a hallmark of nucleosomes flanking promoters of protein-coding genes and is often found in nucleosomes that carry lysine 56-acetylated histone H3 (H3-K56Ac), a mark that promotes replication- ...
  • Sanborn, Adrian L.; Rao, Suhas S. P.; Huang, Su-Chen; Durand, Neva C.; Huntley, Miriam H.; Jewett, Andrew I.; Bochkov, Ivan D.; Chinnappan, Dharmaraj; Cutkosky, Ashok; Li, Jian; Geeting, Kristopher P.; Gnirke, Andreas; Melnikov, Alexandre; McKenna, Doug; Stamenova, Elena K.; Aiden, Erez Lieberman; Lander, Eric Steven (National Academy of Sciences (U.S.), 2015-10)
    We recently used in situ Hi-C to create kilobase-resolution 3D maps of mammalian genomes. Here, we combine these maps with new Hi-C, microscopy, and genome-editing experiments to study the physical structure of chromatin ...
  • Fudenberg, Geoffrey; Mirny, Leonid A.; Doyle, Boryana G.; Imakaev, Maksim Viktorovich (Public Library of Science, 2014-10)
    The classic model of eukaryotic gene expression requires direct spatial contact between a distal enhancer and a proximal promoter. Recent Chromosome Conformation Capture (3C) studies show that enhancers and promoters are ...
  • Onder, Tamer T.; Kara, Nergis; Cherry, Anne; Sinha, Amit U.; Zhu, Nan; Bernt, Kathrin M.; Cahan, Patrick; Marcarci, B. Ogan; Unternaehrer, Juli; Lander, Eric S.; Armstrong, Scott A.; Daley, George Q.; Gupta, Piyush (Nature Publishing Group, 2012-03)
    Generation of induced pluripotent stem cells (iPSCs) by somatic cell reprogramming involves global epigenetic remodelling. Whereas several proteins are known to regulate chromatin marks associated with the distinct epigenetic ...
  • Ji, Xiong; Abraham, Brian J.; Lee, Tong Ihn; Jaenisch, Rudolf; Bradner, James E.; Young, Richard A.; Dadon, Daniel Benjamin (National Academy of Sciences (U.S.), 2015-03)
    More than a thousand proteins are thought to contribute to mammalian chromatin and its regulation, but our understanding of the genomic occupancy and function of most of these proteins is limited. Here we describe an ...
  • Joung, J. Keith; Khalil, Ahmad S.; Keung, Albert Jun Qi; Collins, James J. (Nature Publishing Group, 2015-02)
    As synthetic biology approaches are extended to diverse applications throughout medicine, biotechnology and basic biological research, there is an increasing need to engineer yeast, plant and mammalian cells. Eukaryotic ...
  • Pan, Ling; Penney, Jay; Tsai, Li-Huei (Elsevier, 2014-08)
    With the continued extension of lifespan, aging and age-related diseases have become a major medical challenge to our society. Aging is accompanied by changes in multiple systems. Among these, the aging process in the ...
  • Shingleton, Jennifer R.; Hemann, Michael (Public Library of Science, 2015-11)
    Aberrant chromatin regulation is a frequent driver of leukemogenesis. Mutations in chromatin regulators often result in more stem-like cells that seed a bulk leukemic population. Inhibitors targeting these proteins represent ...
  • Vastenhouw, Nadine L.; Zhang, Yong; Woods, Ian G.; Imam, Farhad; Regev, Aviv; Liu, X. Shirley; Rinn, John L.; Schier, Alexander F. (Nature Publishing Group, 2010-03)
    After fertilization the embryonic genome is inactive until transcription is initiated during the maternal–zygotic transition. This transition coincides with the formation of pluripotent cells, which in mammals can be used ...
  • Guttman, Mitchell; Amit, Ido; Garber, Manuel; French, Courtney; Lin, Michael F.; Feldser, David M.; Huarte, Maite; Zuk, Or; Carey, Bryce W.; Cassady, John P.; Cabili, Moran N.; Jaenisch, Rudolf; Mikkelsen, Tarjei Sigurd; Jacks, Tyler E.; Hacohen, Nir; Bernstein, Bradley E.; Kellis, Manolis; Lander, Eric S. (Nature Publishing Group, 2009-02)
    There is growing recognition that mammalian cells produce many thousands of large intergenic transcripts [1, 2, 3, 4]. However, the functional significance of these transcripts has been particularly controversial. Although ...
  • Guenther, Matthew G.; Frampton, Garrett M.; Soldner, Frank; Hockemeyer, Dirk; Mitalipova, Maya; Jaenisch, Rudolf; Young, Richard A. (Elsevier, 2010-08)
    Knowledge of both the global chromatin structure and the gene expression programs of human embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs) should provide a robust means to assess whether the genomes ...
  • Kubicek, Stefan; Gilbert, Joshua C.; Fomina-Yadlin, Dina; Gitlin, Alexander D.; Yuan, Yuan; Wagner, Florence F.; Holson, Edward B.; Luo, Tuoping; Lewis, Timothy A.; Taylor, Bradley; Gupta, Supriya; Shamji, Alykhan F.; Wagner, Bridget K.; Clemons, Paul A.; Schreiber, Stuart L. (National Academy of Sciences, 2012-04)
    Under the instruction of cell-fate–determining, DNA-binding transcription factors, chromatin-modifying enzymes mediate and maintain cell states throughout development in multicellular organisms. Currently, small molecules ...
  • Ernst, Jason; Kellis, Manolis (Nature Publishing Group, 2012-02)
    To the Editor: Chromatin-state annotation using combinations of chromatin modification patterns has emerged as a powerful approach for discovering regulatory regions and their cell type–specific activity patterns and for ...
  • Demirbas, Umit; Sennaroglu, A.; Cankaya, H.; Cizmeciyan, N.; Kurt, A.; Somer, M. (SPIE, 2010-02)
    This paper provides an overview of the experimental work performed in our research group on the synthesis, spectroscopic investigation, and laser characterization of chromium-doped zinc selenide (Cr[superscript 2+]:ZnSe). ...
  • Teleman, Aurelio A.; Graumann, Peter L.; Lin, Daniel Chi-Hong; Grossman, Alan D.; Losick, Richard (Elsevier, 1998-09)
    Background: The contour length of the circular chromosome of bacteria is greater than a millimeter but must be accommodated within a cell that is only a few micrometers in length. Bacteria do not have nucleosomes and little ...
  • Tabuchi, Tomoko M.; Deplancke, Bart; Osato, Naoki; Zhu, Lihua J.; Barrasa, M. Inmaculada; Harrison, Melissa M.; Horvitz, H. Robert; Walhout, Albertha J. M.; Hagstrom, Kristen A. (Public Library of Science, 2011-05)
    DRM is a conserved transcription factor complex that includes E2F/DP and pRB family proteins and plays important roles in development and cancer. Here we describe new aspects of DRM binding and function revealed through ...
  • Schmidt, Jens Christopher; Cheeseman, Iain McPherson (Elsevier B.V., 2011-02)
    The Ndc80 complex is a key component of the kinetochore–microtubule interface. Two studies now demonstrate that a conserved loop region within the extended coiled-coil of Ndc80 plays an unexpected role in recruiting proteins ...
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