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Browsing MIT Open Access Articles by Title

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  • Sessions, Alex L.; Zhang, Lichun; Welander, Paula V.; Doughty, David; Newman, Dianne K.; Summons, Roger Everett (Elsevier, 2012-12)
    Hopanoids are triterpenoids produced mainly by bacteria, are ubiquitous in the environment, and have many important applications as biological markers. A wide variety of related hopanoid structures exists, many of which ...
  • Chung, Chee Yeun; Khurana, Vikram; Auluck, Pavan K.; Tardiff, Daniel F.; Mazzulli, Joseph R.; Soldner, Frank; Baru, Valeriya; Lou, Yali; Freyzon, Yelena; Cho, Sukhee; Muffat, Julien; Mitalipova, Maisam; Pluth, Michael D.; Jui, Nathan T.; Schule, Birgitt; Lippard, Stephen J.; Tsai, Li-Huei; Krainc, Dimitri; Jaenisch, Rudolf; Lindquist, Susan; Mungenast, Alison; Buchwald, Stephen Leffler (American Association for the Advancement of Science (AAAS), 2013-10)
    The induced pluripotent stem (iPS) cell field holds promise for in vitro disease modeling. However, identifying innate cellular pathologies, particularly for age-related neurodegenerative diseases, has been challenging. ...
  • Yamamoto, Teppei; Imai, Kosuke (Oxford University Press, 2013-01)
    Social scientists are often interested in testing multiple causal mechanisms through which a treatment affects outcomes. A predominant approach has been to use linear structural equation models and examine the statistical ...
  • Klein, Michael G.; Zwart, Peter; Bagby, Sarah C.; Cai, Fei; Chisholm, Sallie (Penny); Heinhorst, Sabine; Cannon, Gordon C.; Kerfeld, Cheryl A. (Elsevier, 2009-09)
    Bacterial microcompartments (BMCs) are polyhedral bodies, composed entirely of proteins, that function as organelles in bacteria; they promote subcellular processes by encapsulating and co-localizing targeted enzymes with ...
  • Johnson, Christopher M.; Yuqing, Chen; Lee, Heejin; Ke, Ailong; Weaver, Keith E.; Dunny, Gary M. (National Academy of Sciences (U.S.), 2014-02)
    Anti-Q is a small RNA encoded on pCF10, an antibiotic resistance plasmid of Enterococcus faecalis, which negatively regulates conjugation of the plasmid. In this study we sought to understand how Anti-Q is generated relative ...
  • Cho, Annie; Histon, Jonathan; de Albuquerque Filho, Emilio Alverne Falcao; Hansman, Robert J., Jr. (2011-05)
    In order to identify sectors supporting a minimum differences approach to generic airspace, traffic patterns in 360 high-altitude sectors were examined for common structural features. These structural features are used as ...
  • Welander, Paula V.; Coleman, Maureen L.; Sessions, Alex L.; Summons, Roger Everett; Newman, Dianne K. (National Academy of Sciences, 2010-04)
    The rise of atmospheric oxygen has driven environmental change and biological evolution throughout much of Earth’s history and was enabled by the evolution of oxygenic photosynthesis in the cyanobacteria. Dating this ...
  • Tang, Yun-Chi; Williams, Bret R.; Siegel, Jake J.; Amon, Angelika B. (Elsevier B.V., 2011-02)
    Aneuploidy, an incorrect chromosome number, is a hallmark of cancer. Compounds that cause lethality in aneuploid, but not euploid, cells could therefore provide new cancer therapies. We have identified the energy stress-inducing ...
  • Torres, Eduardo Martin; Dephoure, Noah; Panneerselvam, Amudha; Tucker, Cheryl M.; Whittaker, Charles A.; Gygi, Steven P.; Dunham, Maitreya J.; Amon, Angelika B. (Elsevier B.V., 2010-10)
    Aneuploidy causes a proliferative disadvantage in all normal cells analyzed to date, yet this condition is associated with a disease characterized by unabated proliferative potential, cancer. The mechanisms that allow ...
  • Mani, D. R.; Tsukamoto, Kosuke; Zhang, Songwen; Krieger, Monty; Shi, Jianru; Haagensen, Darrow E.; Otsuka, Fumiyuki; Guan, Jian; Smith, Jonathan D.; Weng, Wei; Liao, Ronglih; Kolodgie, Frank D.; Virmani, Renu (National Academy of Sciences (U.S.), 2013-09)
    Mice with homozygous null mutations in the HDL receptor (scavenger receptor class B, type I, or SR-BI) and apolipoprotein E (apoE) genes [SR-BI/apoE double KO (SR-BI[superscript −/−]/apoE[superscript −/−] or dKO) mice] ...
  • Anderson, Gemma E.; Gaensler, B. M.; Kaplan, David L.; Posselt, Bettina; Slane, Patrick O.; Murray, Stephen S.; Mauerhan, Jon C.; Benjamin, Robert A.; Brogan, Crystal L.; Chakrabarty, Deepto; Drake, Jeremy J.; Drew, Janet E.; Grindlay, Jonathan E.; Hong, Jaesub; Lazio, T. Joseph W.; Lee, Julia C.; Steeghs, Danny T. H.; van Kerkwijk, Marten H. (Institute of Physics Publishing, 2011-01)
    We present X-ray, infrared, optical, and radio observations of four previously unidentified Galactic plane X-ray sources: AX J163252-4746, AX J184738-0156, AX J144701-5919, and AX J144547-5931. Detection of each source ...
  • Johnson, Christopher M.; Grossman, Alan D.; Wright, Laurel (Public Library of Science, 2015-10)
    We identified a functional single strand origin of replication (sso) in the integrative and conjugative element ICEBs1 of Bacillus subtilis. Integrative and conjugative elements (ICEs, also known as conjugative transposons) ...
  • Chen, Nancy; Bellott, Daniel W.; Page, David C; Clark, Andrew G (BioMed Central Ltd, 2012-05)
    Background: The female-specific W chromosomes and male-specific Y chromosomes have proven difficult to assemble with whole-genome shotgun methods, creating a demand for new approaches to identify sequence contigs specific ...
  • Faherty, Jacqueline K.; Burgasser, Adam J.; Bochanski, John J.; Looper, Dagny L.; West, Andrew A.; van der Bliek, Nicole S. (IOP Publishing, 2011-01)
    We report our discovery of NLTT 20346 as an M5+M6 companion system to the tight binary (or triple) L dwarf 2MASS J0850359+105716. This nearby (~31 pc), widely separated (~7700 AU) quadruple system was identified through a ...
  • Reinke, Aaron Wade; Grigoryan, Gevorg; Keating, Amy E. (American Chemical Society, 2010-03)
    Basic-region leucine-zipper transcription factors (bZIPs) contain a segment rich in basic amino acids that can bind DNA, followed by a leucine zipper that can interact with other leucine zippers to form coiled-coil homo- ...
  • Emerling, B. M.; Benes, Cyril H.; Poulogiannis, G.; Courtney, K.; Liu, H.; Choo-Wing, R.; Bellinger, Gary; Tsukazawa, K. S.; Brown, V.; Signoretti, S.; Soltoff, S. P.; Cantley, Lewis C.; Bell, Eric L. (National Academy of Sciences (U.S.), 2013-02)
    CUB domain-containing protein 1 (CDCP1) is a transmembrane protein that is highly expressed in stem cells and frequently overexpressed and tyrosine-phosphorylated in cancer. CDCP1 promotes cancer cell metastasis. However, ...
  • Butler, Thomas C.; Barton, John P.; Kardar, Mehran; Chakraborty, Arup K. (American Physical Society, 2016-02)
    Human immunodeficiency virus (HIV) evolves with extraordinary rapidity. However, its evolution is constrained by interactions between mutations in its fitness landscape. Here we show that an Ising model describing these ...
  • Bai, Jing; Tu, Ting-Yuan; Kim, Choong; Thiery, Jean Paul; Kamm, Roger Dale (Impact Journals/National Center for Biotechnology Information (U.S.), 2015-10)
    Experiments were performed in a modified microfluidic platform recapitulating part of the in vivo tumor microenvironment by co-culturing carcinoma cell aggregates embedded in a three-dimensional (3D) collagen scaffold with ...
  • Kheradpour, Pouya; Bristow, Christopher A.; Mag Washietl, Stefan; Ay, Ferhat; Jungreis, Irwin; Marbach, Daniel; Sealfon, Rachel Sima; Will, Sebastian; Berger, Bonnie; Kellis, Manolis; Roy, Sushmita; Ernst, Jason; Lin, Michael F.; Meyer, Patrick E.; Di Stefano, Luisa; Candeias, Rogerio; Nordman, Jared T.; Orr-Weaver, Terry L. (American Association for the Advancement of Science (AAAS), 2010-12)
    To gain insight into how genomic information is translated into cellular and developmental programs, the Drosophila model organism Encyclopedia of DNA Elements (modENCODE) project is comprehensively mapping transcripts, ...
  • Vaysse, Amaury; Ratnakumar, Abhirami; Derrien, Thomas; Axelsson, Erik; Pielberg, Gerli Rosengren; Fall, Tove; Seppälä, Eija H.; Hansen, Mark S. T.; Lawley, Cindy T.; Bannasch, Danika L.; Vilà, Carles; Lohi, Hannes; Galibert, Francis; Fredholm, Merete; Häggström, Jens; Hedhammar, Åke; André, Catherine; Hitte, Christophe; Webster, Matthew T.; Sigurdsson, Snaevar; Karlsson, Elinor K.; Lindblad-Toh, Kerstin (Public Library of Science, 2011-10)
    The extraordinary phenotypic diversity of dog breeds has been sculpted by a unique population history accompanied by selection for novel and desirable traits. Here we perform a comprehensive analysis using multiple test ...
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