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Browsing MIT Open Access Articles by Title

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  • Agarwal, Anuradha Murthy; Hu, J.; Richardson, M.; Richardson, K.; Petit, L.; Carlie, N.; Faris, C.; Choi, J.; Ramme, M.; Anderson, T.; Kimerling, Lionel C. (The International Society for Optical Engineering, 2009-02)
    The ability to integrate micro-channels for fluid transport with optical elements is attractive for the development of compact and portable chip-based sensors. Femtosecond Laser Direct Writing (FLDW) in transparent materials ...
  • Faulkner, Thomas; Liu, Hong; Rangamani, Mukund (Spring Berlin/Heidelberg, 2011-08)
    We formulate a holographic Wilsonian renormalization group flow for strongly coupled systems with a gravity dual, motivated by the need to extract efficiently low energy behavior of such systems. Starting with field theories ...
  • Miyagawa, Shigeru; Ojima, Shiro; Berwick, Robert C.; Okanoya, Kazuo (Frontiers Research Foundation, 2014-06)
    How human language arose is a mystery in the evolution of Homo sapiens. Miyagawa et al. (2013) put forward a proposal, which we will call the Integration Hypothesis of human language evolution, that holds that human language ...
  • Martin, Adam C.; Gelbart, Michael; Fernandez-Gonzalez, Rodrigo; Kaschube, Matthias; Wieschaus, Eric F. (Rockefeller University Press, 2010-03)
    Contractile forces generated by the actomyosin cytoskeleton within individual cells collectively generate tissue-level force during epithelial morphogenesis. During Drosophila mesoderm invagination, pulsed actomyosin ...
  • Park, Peter J.; Kong, Sek Won; Tebaldi, Toma; Lai, Weil R.; Kasif, Simon; Kohane, Isaac (Oxford University Press, 2009-09)
    Motivation: Type 2 diabetes is a chronic metabolic disease that involves both environmental and genetic factors. To understand the genetics of type 2 diabetes and insulin resistance, the DIabetes Genome Anatomy Project ...
  • Kreeger, Pamela K.; Wang, Yufang; Haigis, Kevin M.; Lauffenburger, Douglas A. (Royal Society of Chemistry, 2010-03)
    Colon tumors frequently harbor mutation in K-RAS and/or N-RAS, members of a GTPase family operating as a central hub for multiple key signaling pathways. While these proteins are strongly homologous, they exhibit diverse ...
  • Huang, Shao-shan Carol; Fraenkel, Ernest (American Association for the Advancement of Science (AAAS), 2009-07)
    Cellular signaling and regulatory networks underlie fundamental biological processes such as growth, differentiation, and response to the environment. Although there are now various high-throughput methods for studying ...
  • Arora, William J.; Tenhaeff, Wyatt E.; Gleason, Karen K.; Barbastathis, George (Institute of Electrical and Electronics Engineers, 2009-02)
    This paper presents the fabrication and demonstration of an ultrathin microelectromechanical chemical sensing device. Microcantilevers are etched from 100-nm-thick silicon nitride, and a 75-nm-thick reactive copolymer film ...
  • Sheng, Xing; Liu, Jifeng; Coronel, Naomi; Agarwal, Anuradha Murthy; Michel, Jurgen; Kimerling, Lionel C. (Institute of Electrical and Electronics Engineers, 2010-09)
    Light trapping is an important issue for thin film silicon photovoltaic cells due to the limited absorption coefficient for near infrared light. In this letter, we present a photonic structure that combines porous anodic ...
  • Orcutt, Jason S.; Ram, Rajeev J.; Stojanovic, Vladimir (Society of Photo-Optical Instrumentation Engineers (SPIE), 2013-03)
    Front-end monolithic integration has enabled photonic devices to be fabricated in bulk and thin-SOI CMOS as well as DRAM electronics processes. Utilizing the CMOS generic process model, integration was accomplished on ...
  • Huang, Min; Yanik, Ahmet Ali; Chang, Tsung-Yao; Altug, Hatice (SPIE, 2010-08)
    In this paper, we introduce a novel sensor scheme which merges nano-photonics and nano-fluidics on a single platform through the use of free-standing photonic crystals (PhCs). PhCs offer great freedom to manipulate the ...
  • Fachin, Fabio; Wardle, Brian L.; Chen, G. D.; Toner, M. (Institute of Electrical and Electronics Engineers, 2011-01)
    Presently, an estimated 35 million people are living with HIV, 300 million with Hepatitis C (HCV), with thousands of human fatalities registered ever day due to these and similar infectious diseases. Efficient, reliable, ...
  • Kim, Jane C.; Nordman, Jared; Xie, Fang; Orr-Weaver, Terry L.; Kashevsky, Helena; Eng, Thomas; Li, Sharon; MacAlpine, David M. (Cold Spring Harbor Laboratory Press, 2011-07)
    In metazoans, how replication origins are specified and subsequently activated is not well understood. Drosophila amplicons in follicle cells (DAFCs) are genomic regions that undergo rereplication to increase DNA copy ...
  • Berger, Michael F.; Levin, Joshua Z.; Vijayendran, Krishna; Sivachenko, Andrey; Adiconis, Xian; Maguire, Jared; Johnson, Laura A.; Robinson, James; Verhaak, Roel G.; Sougnez, Carrie; Onofrio, Robert C.; Ziaugra, Liuda; Cibulskis, Kristian; Laine, Elisabeth; Barretina, Jordi; Winckler, Wendy; Fisher, David E.; Getz, Gad; Meyerson, Matthew; Jaffe, David B.; Gabriel, Stacey B.; Lander, Eric S.; Dummer, Reinhard; Gnirke, Andreas; Nusbaum, Chad; Garraway, Levi A. (Cold Spring Harbor Laboratory Press, 2010-02)
    Global studies of transcript structure and abundance in cancer cells enable the systematic discovery of aberrations that contribute to carcinogenesis, including gene fusions, alternative splice isoforms, and somatic ...
  • Busser, Brian W.; Huang, Di; Rogacki, Kevin R.; Lane, Elizabeth A.; Shokri, Leila; Ni, Ting; Gamble, Caitlin E.; Gisselbrecht, Stephen S.; Zhu, Jun; Bulyk, Martha L.; Ovcharenko, Ivan; Michelson, Alan M. (National Academy of Sciences (U.S.), 2012-11)
    Contemporary high-throughput technologies permit the rapid identification of transcription factor (TF) target genes on a genome-wide scale, yet the functional significance of TFs requires knowledge of target gene expression ...
  • Ernst, Jason; Kellis, Manolis; Hoffman, Michael M.; Wilder, Steven P.; Kundaje, Anshul; Harris, Robert S.; Libbrecht, Max; Giardine, Belinda; Ellenbogen, Paul M.; Bilmes, Jeffrey A.; Birney, Ewan; Hardison, Ross C.; Dunham, Ian; Noble, William Stafford (Oxford University Press, 2012-12)
    The ENCODE Project has generated a wealth of experimental information mapping diverse chromatin properties in several human cell lines. Although each such data track is independently informative toward the annotation of ...
  • Cabili, Moran N.; Trapnell, Cole; Goff, Loyal; Koziol, Magdalena; Tazon-Vega, Barbara; Regev, Aviv; Rinn, John L. (Cold Spring Harbor Laboratory Press, 2011-09)
    Large intergenic noncoding RNAs (lincRNAs) are emerging as key regulators of diverse cellular processes. Determining the function of individual lincRNAs remains a challenge. Recent advances in RNA sequencing (RNA-seq) and ...
  • Hu, Yanhui; Flockhart, Ian; Vinayagam, Arunachalam; Bergwitz, Clemens; Perrimon, Norbert; Mohr, Stephanie E.; Berger, Bonnie (Springer (Biomed Central Ltd.), 2011-08)
    Background Mapping of orthologous genes among species serves an important role in functional genomics by allowing researchers to develop hypotheses about gene function in one species based on what is known about the ...
  • Brown, Jennifer R.; Hanna, Megan; Tesar, Bethany; Werner, Lillian; Pochet, Nathalie; Asara, John M.; Wang, Yaoyu E.; dal Cin, Paola; Fernandes, Stacey M.; Thompson, Christina; MacConaill, Laura; Wu, Catherine J.; Van de Peer, Yves; Correll, Mick; Regev, Aviv; Neuberg, Donna; Freedman, Arnold S. (American Association for Cancer Research, 2012-05)
    Purpose: The disease course of chronic lymphocytic leukemia (CLL) varies significantly within cytogenetic groups. We hypothesized that high-resolution genomic analysis of CLL would identify additional recurrent abnormalities ...
  • Robinson, James T.; Thorvaldsdóttir, Helga; Winckler, Wendy; Guttman, Mitchell; Lander, Eric S.; Getz, Gad; Mesirov, Jill P. (Nature Publishing Group, 2011-01)
    To the Editor: Rapid improvements in sequencing and array-based platforms are resulting in a flood of diverse genome-wide data, including data from exome and whole-genome sequencing, epigenetic surveys, expression profiling ...
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