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Browsing MIT Open Access Articles by Title

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  • Haakonsen, Diane L.; Yuan, Andy H.; Laub, Michael T. (Cold Spring Harbor Laboratory Press, 2015-11)
    Cell cycle progression in most organisms requires tightly regulated programs of gene expression. The transcription factors involved typically stimulate gene expression by binding specific DNA sequences in promoters and ...
  • Haakonsen, Diane Laure; Yuan, Andy Han; Laub, Michael T (Cold Spring Harbor Laboratory Press, 2015-11)
    Cell cycle progression in most organisms requires tightly regulated programs of gene expression. The transcription factors involved typically stimulate gene expression by binding specific DNA sequences in promoters and ...
  • Chao, Hui Xiao; Artemova, Tatiana; Gore, Jeff; Yurtsev, Eugene; Datta, Manoshi Sen (Nature Publishing Group, 2013-08)
    Inactivation of β‐lactam antibiotics by resistant bacteria is a ‘cooperative’ behavior that may allow sensitive bacteria to survive antibiotic treatment. However, the factors that determine the fraction of resistant cells ...
  • Stocker, Roman; Seymour, Justin R.; Ahmed, Tanvir (Oxford University Press, 2009-10)
    Marine bacteria exhibit positive chemotactic responses to the extracellular exudates of the toxic phytoplankton Heterosigma akashiwo. In the environment, this will support bacteria–algae associations with potential ...
  • Friedlander, Ronn Samuel; Vlamakis, Hera; Kim, Philseok; Khan, Mughees; Kolter, Roberto; Aizenberg, Joanna (National Academy of Sciences (U.S.), 2013-03)
    Biofilms, surface-bound communities of microbes, are economically and medically important due to their pathogenic and obstructive properties. Among the numerous strategies to prevent bacterial adhesion and subsequent biofilm ...
  • Gareau, Melanie G.; Wine, Eytan; Rodrigues, David M.; Cho, Joon Ho; Whary, Mark T.; Philpott, Dana J.; MacQueen, Glenda; Sherman, Philip M. (BMJ Publishing, 2010-10)
    Background: The brain–gut axis is a key regulator of normal intestinal physiology; for example, psychological stress is linked to altered gut barrier function, development of food allergies and changes in behaviour. Whether ...
  • Pacis, Alain; Tailleux, Ludovic; Morin, Alexander M.; Lambourne, John; MacIsaac, Julia L.; Yotova, Vania; Dumaine, Anne; Danckaert, Anne; Luca, Francesca; Grenier, Jean-Christophe; Hansen, Kasper D.; Gicquel, Brigitte; Yu, Miao; He, Chuan; Tung, Jenny; Pastinen, Tomi; Kobor, Michael S.; Pique-Regi, Roger; Gilad, Yoav; Barreiro, Luis B.; Pai, Athma A. (Cold Spring Harbor Laboratory Press, 2015-09)
    DNA methylation is an epigenetic mark thought to be robust to environmental perturbations on a short time scale. Here, we challenge that view by demonstrating that the infection of human dendritic cells (DCs) with a live ...
  • Moser, Simone; Chileveru, Haritha reddy; Tomaras, Jill M; Nolan, Elizabeth Marie (Wiley Blackwell, 2014-12)
    Defensin attack! Here we report the screening of human defensin 5 against the Keio Collection of E. coli strains. The results of this screen further our understanding of how this important hostdefense peptide kills bacteria ...
  • Marcos; Fu, Henry C.; Powers, Thomas R.; Stocker, Roman (National Academy of Sciences (U.S.), 2012-03)
    The motility of organisms is often directed in response to environmental stimuli. Rheotaxis is the directed movement resulting from fluid velocity gradients, long studied in fish, aquatic invertebrates, and spermatozoa. ...
  • Aakre, Christopher David; Phung, Tuyen N.; Huang, David; Laub, Michael T (Elsevier, 2013-11)
    Toxin-antitoxin (TA) systems are ubiquitous on bacterial chromosomes, yet the mechanisms regulating their activity and the molecular targets of toxins remain incompletely defined. Here, we identify SocAB, an atypical TA ...
  • Biller, Steven; Schubotz, Florence; Roggensack, Sara; Thompson, Anne W.; Summons, Roger Everett; Chisholm, Sallie (Penny) (American Association for the Advancement of Science (AAAS), 2014-01)
    Many heterotrophic bacteria are known to release extracellular vesicles, facilitating interactions between cells and their environment from a distance. Vesicle production has not been described in photoautotrophs, however, ...
  • Belenky, Peter; Ye, Jonathan D.; Cohen, Nadia R.; Ferrante, Thomas; Jain, Saloni; Korry, Benjamin J.; Schwarz, Eric G.; Walker, Graham C.; Collins, James J.; Porter, Caroline; Lobritz, Michael (Elsevier, 2015-10)
    Understanding how antibiotics impact bacterial metabolism may provide insight into their mechanisms of action and could lead to enhanced therapeutic methodologies. Here, we profiled the metabolome of Escherichia coli after ...
  • Citorik, Robert James; Mimee, Mark K.; Lu, Timothy K. (Elsevier, 2014-06)
    Since their discovery, bacteriophages have contributed enormously to our understanding of molecular biology as model systems. Furthermore, bacteriophages have provided many tools that have advanced the fields of genetic ...
  • Xie, Yuzhen; Maza, Marc Moreno (Institute of Electrical and Electronics Engineers, 2010-02)
    In symbolic computation, polynomial multiplication is a fundamental operation akin to matrix multiplication in numerical computation. We present efficient implementation strategies for FFT-based dense polynomial multiplication ...
  • Kim, Sunghwan; Sideris, Polixeni Dionisia; Sevier, Carolyn S.; Kaiser, Chris (Rockefeller University Press, The, 2012-03)
    The endoplasmic reticulum (ER) provides an environment optimized for oxidative protein folding through the action of Ero1p, which generates disulfide bonds, and Pdi1p, which receives disulfide bonds from Ero1p and transfers ...
  • Guillemin, Victor W.; Sabatini, Silvia; Zara, Catalin (Oxford University Press, 2012-07)
    Let T be a torus and B a compact T-manifold. Goresky et al. show in [3] that if B is (what was subsequently called) a GKM manifold, then there exists a simple combinatorial description of the equivariant cohomology ring ...
  • DiCarlo, James; Rust, Nicole C. (Society for Neuroscience, 2012-07)
    Although popular accounts suggest that neurons along the ventral visual processing stream become increasingly selective for particular objects, this appears at odds with the fact that inferior temporal cortical (IT) neurons ...
  • Speth, Raymond L.; Green, William H.; MacNamara, Shevarl; Strang, W. Gilbert (Society for Industrial and Applied Mathematics, 2013-11)
    Many systems of equations fit naturally in the form $du/dt = A(u) + B(u)$. We may separate convection from diffusion, $x$-derivatives from $y$-derivatives, and (especially) linear from nonlinear. We alternate between ...
  • Niesen, Urs; Gupta, Piyush; Shah, Devavrat (Institute of Electrical and Electronics Engineers, 2010-05)
    We consider the question of determining the scaling of the n[superscript n] -dimensional balanced unicast and the n 2[superscript n]-dimensional balanced multicast capacity regions of a wireless network with n nodes placed ...
  • Souza Ramos, Joao Luiz Almeida; Wang, Albert D.; Kim, Sangbae (Institute of Electrical and Electronics Engineers (IEEE), 2015-09)
    This paper introduces a novel Balance Feedback Interface (BFI) that addresses the problem of bilateral feedback for teleoperation of humanoid robots. With this new device we expect to enhance robot’s high force manipulation ...
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