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Browsing MIT Open Access Articles by Title

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  • Zinser, Erik R.; Lindell, Debbie; Johnson, Zackary I.; Futschik, Matthias; Steglich, Claudia; Coleman, Maureen L.; Wright, Matthew A.; Rector, Trent; Steen, Robert; McNulty, Nathan; Thompson, Luke Richard; Chisholm, Sallie (Penny) (Public Library of Science, 2009-04)
    The marine cyanobacterium Prochlorococcus MED4 has the smallest genome and cell size of all known photosynthetic organisms. Like all phototrophs at temperate latitudes, it experiences predictable daily variation in available ...
  • Deng, Shuo; Balakrishnan, Hari; LaCurts, Katrina Leigh; Goyal, Ameesh K. (Association for Computing Machinery (ACM), 2013-10)
    Cloud computing infrastructures are increasingly being used by network-intensive applications that transfer significant amounts of data between the nodes on which they run. This paper shows that tenants can do a better job ...
  • Jayaraman, Vijaysekhar; Cable, Alex E.; Duker, Jay S.; Huber, Robert; Fujimoto, James G.; Choi, Woo Jhon; Mohler, Kathrin Juliane; Potsaid, Benjamin M.; Lu, Chen David; Liu, Jonathan Jaoshin (Public Library of Science, 2013-12)
    We demonstrate in vivo choriocapillaris and choroidal microvasculature imaging in normal human subjects using optical coherence tomography (OCT). An ultrahigh speed swept source OCT prototype at 1060 nm wavelengths with a ...
  • Esmaeelpour, Marieh; Kajic, Vedran; Zabihian, Behrooz; Othara, Richu; Ansari-Shahrezaei, Siamak; Kellner, Lukas; Krebs, Ilse; Nemetz, Susanne; Kraus, Martin Franz Georg; Hornegger, Joachim; Fujimoto, James G.; Drexler, Wolfgang; Binder, Susanne (Public Library of Science, 2014-06)
    Objectives: To examine the feasibility of automatically segmented choroidal vessels in three-dimensional (3D) 1060-nmOCT by testing repeatability in healthy and AMD eyes and by mapping Haller's and Sattler's layer thickness ...
  • Regatieri, Caio V.; Branchini, Lauren; Fujimoto, James G.; Duker, Jay S. (Lippincott Williams & Wilkins, 2012-05)
    Background: A structurally and functionally normal choroidal vasculature is essential for retinal function. Therefore, a precise clinical understanding of choroidal morphology should be important for understanding many ...
  • Novais, Eduardo A.; Louzada, Ricardo N.; Dang, Sabin; Regatieri, Caio V.S.; Witkin, André J.; Baumal, Caroline R.; Hornegger, Joachim; Jayaraman, Vijaysekhar; Duker, Jay S.; Waheed, Nadia K.; Adhi, Mehreen; Moult, Eric Michael; Cole, Emily D.; Husvogt, Lennart; Lee, ByungKun; Fujimoto, James G (Elsevier, 2016-02)
    Purpose To compare visualization of choroidal neovascularization (CNV) secondary to age-related macular degeneration (AMD) using an ultrahigh-speed swept-source (SS) optical coherence tomography angiography (OCTA) ...
  • Manjunath, Varsha; Taha, Mohammad; Fujimoto, James G.; Duker, Jay S. (Elsevier, 2010-09)
    Purpose: To examine choroidal thickness and area in healthy eyes using spectral-domain optical coherence tomography (SD-OCT). Design: Retrospective, observational case series. Methods: Thirty-four eyes (34 ...
  • Regatieri, Caio V.; Branchini, Lauren; Carmody, Jill; Fujimoto, James G.; Duker, Jay S. (Ovid Technologies (Wolters Kluwer) - Lippincott Williams & Wilkins, 2012-03)
    Purpose: This study was designed to examine choroidal thickness in patients with diabetes using spectral-domain optical coherence tomography. Methods: Forty-nine patients (49 eyes) with diabetes and 24 age-matched normal ...
  • Bernardara, M.; Trigo Neri Tabuada, Goncalo Jorge (Turpion, 2016-07)
    Conjectures of Beilinson-Bloch type predict that the low-degree rational Chow groups of intersections of quadrics are one-dimensional. This conjecture was proved by Otwinowska in [20]. By making use of homological projective ...
  • Fox, Jacob; Lee, Choongbum; Sudakov, Benny (Springer-Verlag, )
    For a graph G, let (G) denote its chromatic number and (G) denote the order of the largest clique subdivision in G. Let H(n) be the maximum of (G)= (G) over all n-vertex graphs G. A famous conjecture of Haj os from ...
  • Alpatov, Roman; Nakamoto-Kinoshita, Mika; Blanco, Andres; Chen, Shuzhen; Stützer, Alexandra; Armache, Karim J.; Simon, Matthew D.; Xu, Chao; Ali, Muzaffar; Murn, Jernej; Prisic, Sladjana; Kutateladze, Tatiana G.; Vakoc, Christopher R.; Min, Jinrong; Kingston, Robert E.; Fischle, Wolfgang; Warren, Stephen T.; Shi, Yang; Lesch, Bluma; Page, David C (Elsevier, 2014-05)
    Fragile X syndrome, a common form of inherited intellectual disability, is caused by loss of the fragile X mental retardation protein FMRP. FMRP is present predominantly in the cytoplasm, where it regulates translation of ...
  • Rege, Mayuri; Subramanian, Vidya; Zhu, Chenchen; Hsieh, Tsung-Han S.; Weiner, Assaf; Friedman, Nir; Steinmetz, Lars M.; Rando, Oliver J.; Peterson, Craig L.; Clauder-Munster, Sandra; Boyer, Laurie (Elsevier, 2015-11)
    The histone variant H2A.Z is a hallmark of nucleosomes flanking promoters of protein-coding genes and is often found in nucleosomes that carry lysine 56-acetylated histone H3 (H3-K56Ac), a mark that promotes replication- ...
  • Sanborn, Adrian L.; Rao, Suhas S. P.; Huang, Su-Chen; Durand, Neva C.; Huntley, Miriam H.; Jewett, Andrew I.; Bochkov, Ivan D.; Chinnappan, Dharmaraj; Cutkosky, Ashok; Li, Jian; Geeting, Kristopher P.; Gnirke, Andreas; Melnikov, Alexandre; McKenna, Doug; Stamenova, Elena K.; Aiden, Erez Lieberman; Lander, Eric Steven (National Academy of Sciences (U.S.), 2015-10)
    We recently used in situ Hi-C to create kilobase-resolution 3D maps of mammalian genomes. Here, we combine these maps with new Hi-C, microscopy, and genome-editing experiments to study the physical structure of chromatin ...
  • Fudenberg, Geoffrey; Mirny, Leonid A.; Doyle, Boryana G.; Imakaev, Maksim Viktorovich (Public Library of Science, 2014-10)
    The classic model of eukaryotic gene expression requires direct spatial contact between a distal enhancer and a proximal promoter. Recent Chromosome Conformation Capture (3C) studies show that enhancers and promoters are ...
  • Onder, Tamer T.; Kara, Nergis; Cherry, Anne; Sinha, Amit U.; Zhu, Nan; Bernt, Kathrin M.; Cahan, Patrick; Marcarci, B. Ogan; Unternaehrer, Juli; Lander, Eric S.; Armstrong, Scott A.; Daley, George Q.; Gupta, Piyush (Nature Publishing Group, 2012-03)
    Generation of induced pluripotent stem cells (iPSCs) by somatic cell reprogramming involves global epigenetic remodelling. Whereas several proteins are known to regulate chromatin marks associated with the distinct epigenetic ...
  • Ji, Xiong; Abraham, Brian J.; Lee, Tong Ihn; Jaenisch, Rudolf; Bradner, James E.; Young, Richard A.; Dadon, Daniel Benjamin (National Academy of Sciences (U.S.), 2015-03)
    More than a thousand proteins are thought to contribute to mammalian chromatin and its regulation, but our understanding of the genomic occupancy and function of most of these proteins is limited. Here we describe an ...
  • Joung, J. Keith; Khalil, Ahmad S.; Keung, Albert Jun Qi; Collins, James J. (Nature Publishing Group, 2015-02)
    As synthetic biology approaches are extended to diverse applications throughout medicine, biotechnology and basic biological research, there is an increasing need to engineer yeast, plant and mammalian cells. Eukaryotic ...
  • Shingleton, Jennifer R.; Hemann, Michael (Public Library of Science, 2015-11)
    Aberrant chromatin regulation is a frequent driver of leukemogenesis. Mutations in chromatin regulators often result in more stem-like cells that seed a bulk leukemic population. Inhibitors targeting these proteins represent ...
  • Vastenhouw, Nadine L.; Zhang, Yong; Woods, Ian G.; Imam, Farhad; Regev, Aviv; Liu, X. Shirley; Rinn, John L.; Schier, Alexander F. (Nature Publishing Group, 2010-03)
    After fertilization the embryonic genome is inactive until transcription is initiated during the maternal–zygotic transition. This transition coincides with the formation of pluripotent cells, which in mammals can be used ...
  • Guttman, Mitchell; Amit, Ido; Garber, Manuel; French, Courtney; Lin, Michael F.; Feldser, David M.; Huarte, Maite; Zuk, Or; Carey, Bryce W.; Cassady, John P.; Cabili, Moran N.; Jaenisch, Rudolf; Mikkelsen, Tarjei Sigurd; Jacks, Tyler E.; Hacohen, Nir; Bernstein, Bradley E.; Kellis, Manolis; Lander, Eric S. (Nature Publishing Group, 2009-02)
    There is growing recognition that mammalian cells produce many thousands of large intergenic transcripts [1, 2, 3, 4]. However, the functional significance of these transcripts has been particularly controversial. Although ...
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