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Browsing MIT Open Access Articles by Title

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  • Rangan, Sundeep; Fletcher, Alyson K.; Goyal, Vivek K. (Institute of Electrical and Electronics Engineers (IEEE), 2010-07)
    The replica method is a non-rigorous but widely-accepted technique from statistical physics used in the asymptotic analysis of large, random, nonlinear problems. This paper applies the replica method to analyze non-Gaussian ...
  • Moitra, Ankur; Leighton, Frank Thomson (Association for Computing Machinery (ACM), 2010-06)
    Suppose we are given a graph G = (V, E) and a set of terminals K ⊂ V. We consider the problem of constructing a graph H = (K, E[subscript H]) that approximately preserves the congestion of every multicommodity flow with ...
  • Kopparty, Swastik; Saraf, Shubhangi; Sudan, Madhu; Dvir, Zeev (Institute of Electrical and Electronics Engineers, 2009-10)
    We extend the "method of multiplicities" to get the following results, of interest in combinatorics and randomness extraction. 1) We show that every Kakeya set (a set of points that contains a line in every direction) in ...
  • Ulitsky, Igor; Shkumatava, Alena; Jan, Calvin H.; Subtelny, Alexander Orest; Koppstein, David Neal Pira; Bell, George W.; Sive, Hazel L.; Bartel, David P. (Cold Spring Harbor Laboratory Press, 2012-06)
    The post-transcriptional fate of messenger RNAs (mRNAs) is largely dictated by their 3′ untranslated regions (3′ UTRs), which are defined by cleavage and polyadenylation (CPA) of pre-mRNAs. We used poly(A)-position profiling ...
  • Hung, Tiffany; Wang, Yulei; Lin, Michael F; Koegel, Ashley K; Kotake, Yojiro; Grant, Gavin D; Horlings, Hugo M; Shah, Nilay; Umbricht, Christopher; Wang, Pei; Wang, Yu; Kong, Benjamin; Langerød, Anita; Børresen-Dale, Anne-Lise; Kim, Seung K; van de Vijver, Marc; Sukumar, Saraswati; Whitfield, Michael L; Kellis, Manolis; Xiong, Yue; Wong, David J; Chang, Howard Y; Lin, Michael F. (Nature Publishing Group, 2011-06)
    Transcription of long noncoding RNAs (lncRNAs) within gene regulatory elements can modulate gene activity in response to external stimuli, but the scope and functions of such activity are not known. Here we use an ...
  • Ng, Christopher W.; Yildirim, Ferah; Yap, Soon Ming Micha; Dalin, Simona Sara; Matthews, Bryan; Velez, Patricio J.; Labadorf, Adam; Housman, David E.; Fraenkel, Ernest (National Academy of Sciences (U.S.), 2013-01)
    The earliest stages of Huntington disease are marked by changes in gene expression that are caused in an indirect and poorly understood manner by polyglutamine expansions in the huntingtin (HTT) protein. To explore the ...
  • Wong, Daniel; Teixeira, Ana; Oikonomopoulos, Spyros; Humburg, Peter; Lone, Imtiaz N.; Saliba, David; Siggers, Trevor; Bulyk, Martha L.; Angelov, Dimitar; Dimitrov, Stefan; Udalova, Irina A.; Ragoussis, Jiannis (BioMed Central Ltd., 2011-07)
    Background Genetic studies have provided ample evidence of the influence of non-coding DNA polymorphisms on trait variance, particularly those occurring within transcription factor binding sites. Protein binding microarrays ...
  • Gehring, Mary; Bubb, Kerry L.; Henikoff, Steven (American Association for the Advancement of Science (AAAS), 2009-06)
    DNA methylation is an epigenetic mark associated with transposable element silencing and gene imprinting in flowering plants and mammals. In plants, imprinting occurs in the endosperm, which nourishes the embryo during ...
  • Parker, R. R.; Davis, E.; Golfinopoulos, Theodore; Labombard, Brian; Burke, William M.; Granetz, Robert S.; Greenwald, Martin J.; Irby, James Henderson; Leccacorvi, Rick; Marmar, Earl S.; Parkin, William C.; Porkolab, Miklos; Terry, James L.; Vieira, Rui F.; Wolfe, Stephen M. (American Institute of Physics (AIP), 2014-05)
    A novel “Shoelace” antenna has been used to inductively excite a short-wavelength edge fluctuation in a tokamak boundary layer for the first time. The principal design parameters, k[subscript ⊥] = 1.5 ± 0.1 cm[superscript ...
  • Badertscher, Brad; Shroff, Nemit; White, Hal D. (Elsevier, 2013-04)
    Public firms provide a large amount of information through their disclosures. In addition, information intermediaries publicly analyze, discuss, and disseminate these disclosures. Thus, greater public firm presence in an ...
  • Andoni, Alexandr; Indyk, Piotr; Onak, Krzysztof; Rubinfeld, Ronitt (Springer Berlin / Heidelberg, 2009-07)
    We initiate the study of sublinear-time algorithms in the external memory model [1]. In this model, the data is stored in blocks of a certain size B, and the algorithm is charged a unit cost for each block access. This ...
  • Kasahara, Shunichi; Niiyama, Ryuma; Ishii, Hiroshi; Heun, Valentin Markus Josef (Association for Computing Machinery (ACM), 2013-02)
    As domestic robots and smart appliances become increasingly common, they require a simple, universal interface to control their motion. Such an interface must support a simple selection of a connected device, highlight its ...
  • Jagielska, Anna; Wilhite, Kristen D.; Van Vliet, Krystyn J. (Public Library of Science, 2013-09)
    Axon remyelination in the central nervous system requires oligodendrocytes that produce myelin. Failure of this repair process is characteristic of neurodegeneration in demyelinating diseases such as multiple sclerosis, ...
  • Ramirez Millan, Maria; Caldara, Marina; Rusconi, Roberto; Tarasova, Yekaterina; Stocker, Roman; Ribbeck, Katharina; Billings, Amanda Nicole (Public Library of Science, 2013-08)
    Bacteria within biofilms secrete and surround themselves with an extracellular matrix, which serves as a first line of defense against antibiotic attack. Polysaccharides constitute major elements of the biofilm matrix and ...
  • Hynes, Richard O. (American Association for the Advancement of Science (AAAS), 2009-11)
    The extracellular matrix (ECM) and ECM proteins are important in phenomena as diverse as developmental patterning, stem cell niches, cancer, and genetic diseases. The ECM has many effects beyond providing structural support. ...
  • Naba, Alexandra; Clauser, Karl R; Whittaker, Charles A; Carr, Steven A; Tanabe, Kenneth K; Hynes, Richard O. (BioMed Central Ltd., 2014-07)
    Background: Colorectal cancer is the third most frequently diagnosed cancer and the third cause of cancer deaths in the United States. Despite the fact that tumor cell-intrinsic mechanisms controlling colorectal carcinogenesis ...
  • Reckman, Hilke; Orkin, Jeffrey David; Roy, Deb K. (Association for Computing Machinery, 2011-01)
    We use data from a virtual world game for automated learning of words and grammatical constructions and their meanings. The language data are an integral part of the social interaction in the game and consist of chat ...
  • Li, Jinglai; Kath, William L. (Society for Industrial and Applied Mathematics, 2012-04)
    We describe an iterative method that extracts the underlying soliton from a noisy pulse. The method is formulated as a functional iteration: at each step, the soliton component of the difference between the noisy pulse and ...
  • Marshall, Lisa Faye; Cui, Jian; Brokmann, Xavier; Bawendi, Moungi G. (American Physical Society, 2010-07)
    Fluorescence spectroscopy of single chromophores immobilized on a substrate has provided much fundamental insight, yet the spectral line shapes and dynamics of single chromophores freely diffusing in solution have remained ...
  • Teherani, James T.; Chern, Winston; Antoniadis, Dimitri A.; Hoyt, Judy L.; Ruiz, Liliana; Poweleit, Christian D.; Menendez, Jose (American Physical Society, 2012-05)
    Metal-oxide-semiconductor capacitors were fabricated on type-II staggered gap strained-Si/strained-Ge heterostructures epitaxially grown on relaxed SiGe substrates of various Ge fractions. Quasistatic quantum-mechanical ...
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