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Browsing MIT Open Access Articles by Title

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  • Rapoport, Benjamin I. (Public Library of Science, 2010-10)
    Each year in the past three decades has seen hundreds of thousands of runners register to run a major marathon. Of those who attempt to race over the marathon distance of 26 miles and 385 yards (42.195 kilometers), more ...
  • Rabani, Michal; Levin, Joshua Z.; Fan, Lin; Adiconis, Xian; Raychowdhury, Raktima; Garber, Manuel; Gnirke, Andreas; Nusbaum, Chad; Hacohen, Nir; Friedman, Nir; Amit, Ido; Regev, Aviv (Nature Publishing Group, 2011-04)
    Cellular RNA levels are determined by the interplay of RNA production, processing and degradation. However, because most studies of RNA regulation do not distinguish the separate contributions of these processes, little ...
  • Chindelevitch, Leonid; Regev, Aviv; Berger, Bonnie (Springer-Verlag, 2011)
    Metabolic networks are a representation of current knowledge about the metabolic reactions available to a given organism. These networks can be placed into various mathematical frameworks, of which the constraintbased ...
  • Vander Heiden, Matthew G.; Lunt, S. Y.; Dayton, Talya Lucia; Fiske, Brian Prescott; Israelsen, W. J.; Mattaini, Katherine Ruth; Vokes, N. I.; Stephanopoulos, G.; Cantley, L. C.; Metallo, C. M.; Locasale, J. W. (Cold Spring Harbor Laboratory Press, 2012-01)
    Proliferating cells adapt metabolism to support the conversion of available nutrients into biomass. How cell metabolism is regulated to balance the production of ATP, metabolite building blocks, and reducing equivalents ...
  • Abubucker, Sahar; Segata, Nicola; Goll, Johannes; Schubert, Alyxandria M.; Izard, Jacques; Cantarel, Brandi L.; Rodriguez-Mueller, Beltran; Zucker, Jeremy; Thiagarajan, Mathangi; Henrissat, Bernard; White, Owen; Kelley, Scott T.; Methe, Barbara; Schloss, Patrick D.; Gevers, Dirk; Mitreva, Makedonka; Huttenhower, Curtis (Public Library of Science, 2012-06)
    Microbial communities carry out the majority of the biochemical activity on the planet, and they play integral roles in processes including metabolism and immune homeostasis in the human microbiome. Shotgun sequencing of ...
  • Suresh, Subra; Park, YongKeun; Best, Catherine A.; Auth, Thorsten; Gov, Nir S.; Safan, Samuel A.; Popescu, Gabriel; Feld, Michael S. (National Academy of Sciences, 2010-01)
    The remarkable deformability of the human red blood cell (RBC) results from the coupled dynamic response of the phospholipid bilayer and the spectrin molecular network. Here we present quantitative connections between ...
  • Zhou, Kang; Zou, Ruiyang; Stephanopoulos, Gregory; Too, Heng-Phon (Public Library of Science, 2012-11)
    Isoprenoids are natural products that are all derived from isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). These precursors are synthesized either by the mevalonate (MVA) pathway or the 1-Deoxy-D-Xylulose ...
  • Segata, Nicola; Izard, Jacques; Waldron, Levi; Gevers, Dirk; Miropolsky, Larisa; Garrett, Wendy S.; Huttenhower, Curtis (Springer (Biomed Central Ltd.), 2011-06)
    This study describes and validates a new method for metagenomic biomarker discovery by way of class comparison, tests of biological consistency and effect size estimation. This addresses the challenge of finding organisms, ...
  • Zukerberg, Lawrence R; Chung, Daniel; Fomina, Janna N; Darroudi, Firouz; Stollar, B David; Thilly, William G.; Gostjeva, Elena V.; Koledova, Vera V. (Landes Bioscience, 2014-01)
    Bell shaped nuclei of metakaryotic cells double their DNA content during and after symmetric and asymmetric amitotic fissions rather than in the separate, pre-mitotic S-phase of eukaryotic cells. A parsimonious hypothesis ...
  • Sydor, Andrew M.; Jost, Marco; Ryan, Katherine S.; Turo, Kaitlyn E.; Douglas, Colin D.; Drennan, Catherine L.; Zamble, Deborah B. (American Chemical Society (ACS), 2013-02)
    GTPases are critical molecular switches involved in a wide range of biological functions. Recent phylogenetic and genomic analyses of the large, mostly uncharacterized COG0523 subfamily of GTPases revealed a link between ...
  • Holten-Andersen, Niels; Jaishankar, Aditya; Harrington, Matthew J.; Fullenkamp, Dominic E.; DiMarco, Genevieve; He, Lihong; McKinley, Gareth H.; Messersmith, Phillip B.; Lee, Ka Yee C. (Royal Society of Chemistry, 2013-11)
    Growing evidence supports a critical role of dynamic metal-coordination crosslinking in soft biological material properties such as self-healing and underwater adhesion. Using bio-inspired metal-coordinating polymers, ...
  • Stubbe, JoAnne; Cotruvo, Joseph A., Jr.; Cotruvo, Jr, Joseph A. (Royal Society of Chemistry, The, 2012-08)
    How cells ensure correct metallation of a given protein and whether a degree of promiscuity in metal binding has evolved are largely unanswered questions. In a classic case, iron- and manganese-dependent superoxide dismutases ...
  • Bermejo-Deval, Ricardo; Assary, Rajeev S.; Nikolla, Eranda; Moliner, Manuel; Roman-Leshkov, Yuriy; Hwang, Son-Jong; Palsdotter, Arna; Silverman, Dorothy; Lobo, Raul F.; Curtiss, Larry A.; Davis, Mark E. (National Academy of Sciences (U.S.), 2012-06)
    Isomerization of sugars is used in a variety of industrially relevant processes and in glycolysis. Here, we show that hydrophobic zeolite beta with framework tin or titanium Lewis acid centers isomerizes sugars, e.g., ...
  • Placco, Vinicius M.; Beers, Timothy C.; Karakas, Amanda I.; Kennedy, Catherine R.; Rossi, Silvia; Christlieb, Norbert; Stancliffe, Richard J.; Frebel, Anna L. (IOP Publishing, 2013-05)
    We present a comprehensive abundance analysis of two newly discovered carbon-enhanced metal-poor (CEMP) stars. HE 2138?3336 is a s-process-rich star with [Fe/H] = -2.79, and has the highest [Pb/Fe] abundance ratio measured ...
  • Placco, Vinicius M.; Beers, Timothy C.; Christlieb, Norbert; Lee, Young Sun; Kennedy, Catherine R.; Rossi, Silvia; Santucci, Rafael M.; Frebel, Anna L. (IOP Publishing, 2014-01)
    We report on the discovery of seven low-metallicity stars selected from the Hamburg/ESO Survey, six of which are extremely metal-poor (EMP, [Fe/H] ≤ –3.0), with four having [Fe/H] ≤ –3.5. Chemical abundances or upper limits ...
  • Lelyveld, Victor S.; Brustad, Eric; Arnold, Frances H.; Jasanoff, Alan Pradip (American Chemical Society, 2011-02)
    Engineered metalloproteins constitute a flexible new class of analyte-sensitive molecular imaging agents detectable by magnetic resonance imaging (MRI), but their contrast effects are generally weaker than synthetic agents. ...
  • Shen, Yichen; Ye, Dexin; Wang, Li; Celanovic, Ivan; Ran, Lixin; Joannopoulos, John D.; Soljacic, Marin (American Physical Society, 2014-09)
    We demonstrate how broadband angular selectivity can be achieved with stacks of one-dimensionally periodic photonic crystals, each consisting of alternating isotropic layers and effective anisotropic layers, where each ...
  • Hwang, Harold Young; Liu, M.; Fan, K.; Zhang, J.; Strikwerda, A. C.; Sternbach, A.; Brandt, N. C.; Perkins Jr, Bradford G.; Zhang, X.; Averitt, R. D.; Nelson, Keith Adam (EDP Sciences, 2013-03)
    We demonstrate large nonlinear terahertz responses in the gaps of metamaterial split ring resonators in several materials and use nonlinear THz transmission and THz-pump/THz-probe spectroscopy to study the nonlinear responses ...
  • Chindelevitch, Leonid; Stanley, Sarah; Hung, Deborah; Regev, Aviv; Berger, Bonnie (Springer/BioMed Central Ltd, 2012-01)
    Reconstructed models of metabolic networks are widely used for studying metabolism in various organisms. Many different reconstructions of the same organism often exist concurrently, forcing researchers to choose one of ...
  • Paradiso, Joseph A.; Lifton, Joshua; Laibowitz, Mathew Joel; Harry, Drew Erikson; Gong, Nan-wei; Mittal, Manas (Institute of Electrical and Electronics Engineers, 2009-07)
    Looks at how MIT Media Lab's Responsive Environments Group is exploring ways to bridge networked electronic sensors and human perception through "cross reality" implementations that render and manifest phenomena between ...
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