Advanced Search
DSpace@MIT

Browsing MIT Open Access Articles by Title

Research and Teaching Output of the MIT Community

Browsing MIT Open Access Articles by Title

Sort by: Order: Results:

  • Daskalakis, Constantinos; Roch, Sebastien (Springer Berlin / Heidelberg, 2010-05)
    We introduce the first polynomial-time phylogenetic reconstruction algorithm under a model of sequence evolution allowing insertions and deletions (or indels). Given appropriate assumptions, our algorithm requires sequence ...
  • Roch, Sebastien; Daskalakis, Konstantinos (Institute of Mathematical Statistics, 2013-04)
    We present an efficient phylogenetic reconstruction algorithm allowing insertions and deletions which provably achieves a sequence-length requirement (or sample complexity) growing polynomially in the number of taxa. Our ...
  • Sanchis Ojeda, Roberto; Fabrycky, Daniel C.; Winn, Joshua Nathan; Barclay, Thomas; Clarke, Bruce D.; Ford, Eric B.; Fortney, Jonathan J.; Geary, John C.; Holman, Matthew J.; Howard, Andrew W.; Jenkins, Jon M.; Koch, David; Lissauer, Jack J.; Marcy, Geoffrey W.; Mullally, Fergal; Ragozzine, Darin; Seader, Shawn E.; Still, Martin; Thompson, Susan E. (Nature Publishing Group, 2012-07)
    The Sun’s equator and the planets’ orbital planes are nearly aligned, which is presumably a consequence of their formation from a single spinning gaseous disk. For exoplanetary systems this well-aligned configuration is ...
  • Fedeles, Bogdan I.; Singh, Vipender; Delaney, James C.; Li, Deyu; Essigmann, John M. (American Society for Biochemistry and Molecular Biology (ASBMB), 2015-07)
    The AlkB family of Fe(II)- and α-ketoglutarate-dependent dioxygenases is a class of ubiquitous direct reversal DNA repair enzymes that remove alkyl adducts from nucleobases by oxidative dealkylation. The prototypical and ...
  • Endres, Lauren; Begley, Ulrike; Clark, Ryan; Gu, Chen; Dziergowska, Agnieszka; Małkiewicz, Andrzej; Melendez, J. Andres; Dedon, Peter C.; Begley, Thomas J. (Public Library of Science, 2015-07)
    Environmental and metabolic sources of reactive oxygen species (ROS) can damage DNA, proteins and lipids to promote disease. Regulation of gene expression can prevent this damage and can include increased transcription, ...
  • van Loon, Barbara; Samson, Leona D. (Elsevier, 2013-01)
    Due to a harsh environment mitochondrial genomes accumulate high levels of DNA damage, in particular oxidation, hydrolytic deamination, and alkylation adducts. While repair of alkylated bases in nuclear DNA has been explored ...
  • Lu, Zhe; Fu, Gregory C. (Wiley Blackwell, 2010-08)
    No such thing as a problem substrate! In a reaction designed specifically for the title substrates C-C coupling with alkyl boranes occurred in good yield at room temperature with commercially available catalyst components ...
  • Bugni, J. M.; Meira, L. B.; Samson, Leona D. (Nature Publishing Group, 2008-11)
    O[superscript 6]-methylguanine DNA methyltransferase (MGMT) suppresses mutations and cell death that result from alkylation damage. MGMT expression is lost by epigenetic silencing in a variety of human cancers including ...
  • Kupfer, Thomas; Schrock, Richard Royce (American Chemical Society (ACS), 2009-08)
    In this paper we explore the ethylation of dinitrogen (employing [Et[subscript 3]O][BAr[f over 4]]; Ar[superscript f] = 3,5-(CF[subscript 3])[subscript 2]C[subscript 6]H[subscript 3]) in [HIPTN[subscript 3]N]Mo (Mo) complexes ...
  • Schrock, Richard Royce (Royal Society of Chemistry, The, 2013-05)
    Alkyne metathesis by molybdenum and tungsten alkylidyne complexes is now ~45 years old. Progress in the practical aspects of alkyne metathesis reactions with well-defined complexes, as well as applications, in the last ...
  • Drego, Nigel A.; Chandrakasan, Anantha P.; Boning, Duane S. (Institute of Electrical and Electronics Engineers (IEEE), 2010-02)
    Increased variation in CMOS processes due to scaling results in greater reliance on accurate variation models in developing circuit methods to mitigate variation. This paper investigates spatial variation in digital circuit ...
  • Näkki, Annu; Kouhia, Sanna T.; Saarela, Janna; Harilainen, Arsi; Tallroth, Kaj; Videman, Tapio; Battié, Michele C.; Kaprio, Jaakko; Kujala, Urho M.; Peltonen, Leena (Springer (Biomed Central Ltd.), 2010-03)
    Background In search for genes predisposing to osteoarthritis (OA), several genome wide scans have provided evidence for linkage on 2q. In this study we targeted a 470 kb region on 2q11.2 presenting the locus with most ...
  • Zhou, Yue; Li, Qin; Cheung, Kim K. Y.; Yang, Sigang; Chui, P. C.; Wong, Kenneth Kin-Yip (Institute of Electrical and Electronics Engineers (IEEE), 2010-08)
    We experimentally demonstrate, for the first time to the best of our knowledge, the use of optical fiber for optical parametric chirped pulse amplification to amplify subpicosecond pulses. We use this system to amplify a ...
  • Milaninia, Kaveh M.; Baldo, Marc A.; Reina, Alfonso; Kong, Jing (American Institute of Physics (AIP), 2009-11)
    We demonstrate an electromechanical switch comprising two polycrystalline graphene films; each deposited using ambient pressure chemical vapor deposition. The top film is pulled into electrical contact with the bottom film ...
  • Wang, Yangyang; Ni, Zeyuan; Liu, Qihang; Quhe, Ruge; Zheng, Jiaxin; Ye, Meng; Yu, Dapeng; Shi, Junjie; Yang, Jinbo; Li, Ju; Lu, Jing (Wiley Blackwell, 2014-11)
    It is an ongoing pursuit to use metal as a channel material in a field effect transistor. All metallic transistor can be fabricated from pristine semimetallic Dirac materials (such as graphene, silicene, and germanene), ...
  • Jackel, O.; Polz, J.; Pfotenhauer, Sebastian Michael; Schlenvoigt, H.-P.; Schwoerer, H.; Kaluza, M. C. (Institute of Physics Publishing, 2010-10)
    We present experimental results from an all-optical diagnostic method to directly measure the evolution of the hot-electron distribution driving the acceleration of ions from thin foils using high-intensity lasers. Central ...
  • Chen, Wenlan; Beck, Kristin Marie; Bucker, Robert; Gullans, Michael; Lukin, Mikhail D.; Tanji-Suzuki, Haruka; Vuletic, Vladan (American Association for the Advancement of Science (AAAS), 2013-07)
    The realization of an all-optical transistor, in which one “gate” photon controls a “source” light beam, is a long-standing goal in optics. By stopping a light pulse in an atomic ensemble contained inside an optical ...
  • Wong, Liang Jie; Freelon, Byron; Rohwer, Timm; Gedik, Nuh; Johnson, Steven G. (Institute of Physics, 2015-01)
    We propose an all-optical, three-dimensional electron pulse compression scheme in which Hermite–Gaussian optical modes are used to fashion a three-dimensional optical trap in the electron pulse's rest frame. We show that ...
  • Ingram, Jessica R.; Knockenhauer, Kevin E.; Markus, Benedikt M.; Mandelbaum, Joseph; Ramek, Alexander; Shan, Yibing; Shaw, David E.; Lourido, Sebastian; Schwartz, Thomas; Ploegh, Hidde (National Academy of Sciences (U.S.), 2015-09)
    Calcium-dependent protein kinases (CDPKs) comprise the major group of Ca[superscript 2+]-regulated kinases in plants and protists. It has long been assumed that CDPKs are activated, like other Ca[superscript 2+]-regulated ...
  • Mauldin, Randall V.; Sauer, Robert T. (Nature Publishing Group, 2012-12)
    The PDZ domains of the trimeric DegS protease bind unassembled outer-membrane proteins (OMPs) that accumulate in the Escherichia coli periplasm. This cooperative binding reaction triggers a proteolytic cascade that activates ...
Open Access