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Browsing MIT Open Access Articles by Title

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  • Hubisz, Melissa J.; Lin, Michael F.; Kellis, Manolis; Siepel, Adam (Public Library of Science, 2011-02)
    The recent release of twenty-two new genome sequences has dramatically increased the data available for mammalian comparative genomics, but twenty of these new sequences are currently limited to ~2× coverage. Here we examine ...
  • Lopez, Cecilia Carolina; Levi, Benjamin; Cory, David G. (American Physical Society, 2009-04)
    We present a protocol for error characterization and its experimental implementation with four qubits in liquid state NMR. The method is designed to retrieve information about spatial correlations and scales as O(n[subscript ...
  • Tatikonda, .; Yuksel, S.; Como, Giacomo (Institute of Electrical and Electronics Engineers, 2009-04)
    The error exponent of Markov channels with feedback is studied in the variable-length block-coding setting. Burnashev's classic result is extended to finite-state ergodic Markov channels. For these channels, a single-letter ...
  • Tan, Vincent Yan Fu; Anandkumar, Animashree; Willsky, Alan S. (Institute of Electrical and Electronics Engineers (IEEE), 2010-07)
    The problem of composite binary hypothesis testing of Markov forest (or tree) distributions is considered. The worst-case type-II error exponent is derived under the Neyman-Pearson formulation. Under simple null hypothesis, ...
  • Tay, Wee Peng; Tsitsiklis, John N. (Institute of Electrical and Electronics Engineers (IEEE), 2011-05)
    We consider the decentralized Bayesian binary hypothesis testing problem in feedback architectures, in which the fusion center broadcasts information based on the messages of some sensors to some or all sensors in the ...
  • Xie, Kun; Doles, Jason D.; Hemann, Michael; Walker, Graham C. (National Academy of Sciences (U.S.), 2010-11)
    The development of cancer drug resistance is a persistent clinical problem limiting the successful treatment of disseminated malignancies. However, the molecular mechanisms by which initially chemoresponsive tumors develop ...
  • Nakiboglu, Baris; Zheng, Lizhong (Institute of Electrical and Electronics Engineers (IEEE), 2012-01)
    Inner and outer bounds are derived on the optimal performance of fixed-length block codes on discrete memoryless channels with feedback and errors-and-erasures decoding. First, an inner bound is derived using a two-phase ...
  • Bookatz, Adam D.; Farhi, Edward; Zhou, Leo (American Physical Society, 2015-08)
    We consider the use of quantum error-detecting codes, together with energy penalties against leaving the code space, as a method for suppressing environmentally induced errors in Hamiltonian-based quantum computation. This ...
  • Bombin, Hector; Martin-Delgado, M. A.; Katzgraber, Helmut G. (American Physical Society, 2009-08)
    We study the error threshold of color codes, a class of topological quantum codes that allow a direct implementation of quantum Clifford gates suitable for entanglement distillation, teleportation, and fault-tolerant quantum ...
  • Popescu, Gabriel; Ikeda, Takahiro; Best, Catherine A.; Badizadegan, Kamran; Feld, Michael S.; Dasari, Ramachandra Rao (SPIE, 2005-12)
    We present a new quantitative method for investigating red blood cell morphology and dynamics. The instrument integrates quantitative phase microscopy with an inverted microscope, which makes it particularly suitable for ...
  • Chan, Vincent W. S.; Chapin, John M. (Institute of Electrical and Electronics Engineers, 2010-01)
    The Transmission Control Protocol (TCP) is ubiquitous, sophisticated, and effective. It also prevents the innovation needed to improve delivery of Internet services to the wireless tactical edge of DOD operations. We argue ...
  • Cotruvo, Joseph A.; Stubbe, JoAnne (American Chemical Society (ACS), 2011-01)
    Escherichia coli class Ib ribonucleotide reductase (RNR) converts nucleoside 5′-diphosphates to deoxynucleoside 5′-diphosphates in iron-limited and oxidative stress conditions. We have recently demonstrated in vitro that ...
  • Cheeseman, Iain McPherson (Springer-Verlag, 2013-04)
    The first centromeric protein identified in any species was CENP-A, a divergent member of the histone H3 family that was recognised by autoantibodies from patients with scleroderma-spectrum disease. It has recently been ...
  • Chryssostomidis, Chryssostomos; Chalfant, Julie; Vargas, J. V. C.; Souza, J. A.; Hovsapian, R.; Ordonez, J. C.; Chiocchio, T. (Association for Computing Machinery (ACM), 2011)
    This work presents a fast visualization and thermal simulation tool developed as part of the Electric Ship Research and Development Consortium (ESRDC) funded by the Office of Naval Research (ONR) that is capable of providing ...
  • Barresi, Michael J. F.; Burton, Sean; Dipietrantonio, Kristina; Amsterdam, Adam; Hopkins, Nancy H.; Karlstrom, Rolf O. (Wiley Blackwell (John Wiley & Sons), 2010-08)
    The formation of the central nervous system depends on the coordinated development of neural and glial cell types that arise from a common precursor. Using an existing group of zebrafish mutants generated by viral insertion, ...
  • Yoon, Bong-June; Smith, Gordon B.; Heynen, Arnold J.; Neve, Rachael L.; Bear, Mark (National Academy of Sciences, 2009-06)
    The classic example of experience-dependent cortical plasticity is the ocular dominance (OD) shift in visual cortex after monocular deprivation (MD). The experimental model of homosynaptic long-term depression (LTD) was ...
  • Richardson, Claire Elissa; Kooistra, Tristan G.; Kim, Dennis H. (Nature Publishing Group, 2010-02)
    The detection and compensatory response to the accumulation of unfolded proteins in the endoplasmic reticulum (ER), termed the unfolded protein response (UPR), represents a conserved cellular homeostatic mechanism with ...
  • Scobie, Kimberly N.; Damez-Werno, Diane; Sun, HaoSheng; Shao, NingYi; Gancarz, Amy; Panganiban, Clarisse H.; Dias, Caroline; Koo, JaWook; Caiafa, Paola; Kaufman, Lewis; Neve, Rachael L.; Dietz, David M.; Shen, Li; Nestler, Eric J. (National Academy of Sciences (U.S.), 2014-02)
    Many of the long-term effects of cocaine on the brain’s reward circuitry have been shown to be mediated by alterations in gene expression. Several chromatin modifications, including histone acetylation and methylation, ...
  • Ferguson, Deveroux; Koo, Ja Wook; Feng, Jian; Heller, Elizabeth; Rabkin, Jacqui; Heshmati, Mitra; Renthal, William; Neve, Rachael L.; Liu, Xiaochuan; Shao, Ningyi; Sartorelli, Vittorio; Shen, Li; Nestler, Eric J. (Society for Neuroscience, 2013-10)
    Sirtuins (SIRTs), class III histone deacetylases, are well characterized for their control of cellular physiology in peripheral tissues, but their influence in brain under normal and pathological conditions remains poorly ...
  • Pulina, Maria V.; Hou, Shuan-Yu; Mittal, Ashok; Julich, Dorthe; Whittaker, Charlie A.; Holley, Scott A.; Hynes, Richard O.; Astrof, Sophie; Whittaker, Charles A. (Elsevier, 2011-04)
    Studies in Xenopus laevis suggested that cell-extracellular matrix (ECM) interactions regulate the development of the left–right axis of asymmetry; however, the identities of ECM components and their receptors important ...
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