Nature Biotechnology Contents: Volume 30 pp 117 - 196

Advertisement GRANT – Staying on the cutting edge is all about collaboration. That's why Expression Analysis & Illumina have combined forces to help fuel your research – 3 FULLY-FUNDED RNA-Seq Studies and data analysis at no cost to you. Apply on-line today or call 919-405-2248 * 866-293-6094. TABLE OF CONTENTS February 2012 Volume 30, Issue 2 In This Issue Editorial News News Feature Bioentrepreneur Correspondence Opinion and Comment Features News and Views Research Highlights Computational Biology Research Errata Corrigenda Careers and Recruitment Subscribe   Facebook   RSS   Recommend to library   Twitter   Advertisement UC Berkeley Extension Intensive Seminars Develop the conceptual framework and vocabulary to succeed as a biotech business professional. Enroll now to understand the complex processes that drive the industry: Life Sciences Business and Marketing: Their Integral Role for Success, April 19-20 in Belmont, Calif. The Drug Development Process, April 23-27 in San Francisco   Advertisement BIOPHARMA DEALMAKERS Company Profiles and Partnering Opportunities   Advertisement Dermatogenetics February 9-12, 2012 - Miami, FL, USA The conference will cover: genetic variation, gene expression and cellular mechanisms in this shared area of exceptional interest to basic researchers, biopharma and translational medicine. For more information and to register visit: www.nature.com/natureconferences/dg2012   In This Issue Top In this issue ppvii - viii doi:10.1038/nbt.2132 Full Text | PDF Editorial Top Why genies don't go back into bottles p117 doi:10.1038/nbt.2133 Abstract | Full Text | PDF News Top Big pharma upheavals cast shadow across biotech sector pp119 - 120 Mark Ratner doi:10.1038/nbt0212-119 Full Text | PDF Amyloid disease drug approved p121 Ken Garber doi:10.1038/nbt0212-121b Full Text | PDF Sangamo's lead zinc-finger therapy flops in diabetic neuropathy pp121 - 123 Michael Eisenstein doi:10.1038/nbt0212-121a Full Text | PDF Gilead's $11 billion HCV bet p122 Karen Carey doi:10.1038/nbt0212-122a Full Text | PDF Affymetrix sued for fraud p122 Jennifer Rohn doi:10.1038/nbt0212-122b Full Text | PDF Enbrel patent surfaces p123 Charlotte Harrison doi:10.1038/nbt0212-123 Full Text | PDF Ablynx drops lead nanobody p124 Gunjan Sinha doi:10.1038/nbt0212-124a Full Text | PDF India's innovation czar p124 Killugudi Jayaraman doi:10.1038/nbt0212-124b Full Text | PDF Toll-like receptor blocker slows beta cell death in type 1 diabetes p124 Susan Aldridge doi:10.1038/nbt0212-124c Full Text | PDF UK government unveils innovation booster p125 Nuala Moran doi:10.1038/nbt0212-125 Full Text | PDF Life Technologies promises $1,000 genome p126 Laura DeFrancesco doi:10.1038/nbt0212-126a Full Text | PDF Around the world in a month p126 doi:10.1038/nbt0212-126b Full Text | PDF Data Page 2011—Big biotechs gorge on debt p127 Walter Yang doi:10.1038/nbt.2119 Full Text | PDF News Feature Top Fresh from the biotech pipeline 2011 pp128 - 131 Jim Kling doi:10.1038/nbt.2111 Abstract | Full Text | PDF Bioentrepreneur Top Planning for the exit pp132 - 134 Kenneth E Eheman Jr doi:10.1038/nbt.2093 Full Text | PDF Correspondence Top PRIDE Inspector: a tool to visualize and validate MS proteomics data pp135 - 137 Rui Wang, Antonio Fabregat, Daniel Rios, David Ovelleiro, Joseph M Foster, Richard G Cote, Johannes Griss, Attila Csordas, Yasset Perez-Riverol, Florian Reisinger, Henning Hermjakob, Lennart Martens and Juan Antonio Vizcaino doi:10.1038/nbt.2112 Full Text | PDF OpenVigil—free eyeballs on AERS pharmacovigilance data pp137 - 138 Ruwen Bohm, Jan Hocker, Ingolf Cascorbi and Thomas Herdegen doi:10.1038/nbt.2113 Full Text | PDF Opinion and Comment Top Commentary The blinded buyer pp139 - 140 Brady Huggett doi:10.1038/nbt.2094 Abstract | Full Text | PDF Features Top Personal medicine—the new banking crisis pp141 - 147 Christopher Thomas Scott, Timothy Caulfield, Emily Borgelt and Judy Illes doi:10.1038/nbt.2116 Abstract | Full Text | PDF Patents Funding and performance at the US Patent and Trademark Office pp148 - 150 Deepak Hegde doi:10.1038/nbt.2110 Abstract | Full Text | PDF Recent patent applications related to stem cells p151 doi:10.1038/nbt.2125 | PDF News and Views Top Smooth muscle diversity from human pluripotent cells pp152 - 154 Mark W Majesky and Christine L Mummery doi:10.1038/nbt.2117 A method for differentiating human pluripotent stem cells into several subtypes of smooth muscle cell should aid the study and treatment of vascular disease. Full Text | PDF See also: Research by Cheung et al. Complex binding sites made to order pp154 - 155 Jamie K Scott, Ralph Pantophlet and Lisa Craig doi:10.1038/nbt.2118 A new computational strategy facilitates de novo design of discontinuous epitopes on protein scaffolds. Full Text | PDF Gene-based passive antibody protection from HIV pp156 - 157 Margaret A Liu doi:10.1038/nbt.2114 Optimized AAV vectors encoding broadly neutralizing antibodies against HIV show promise in mice. Full Text | PDF Research Highlights Top TAL effector-DNA structure | True colors of genome variation | Improving glycoconjugate vaccines | Mapping chromatin regulators | Drug partners for antibiotics Computational Biology Top Analysis Three-dimensional reconstruction of protein networks provides insight into human genetic disease pp159 - 164 Xiujuan Wang, Xiaomu Wei, Bram Thijssen, Jishnu Das, Steven M Lipkin and Haiyuan Yu doi:10.1038/nbt.2106 Large-scale structural genomics and genome-wide association studies generate a wealth of data relevant to human disease. Wang et al. interpret these data in the context of a protein interaction network, showing that systematic analyses of the structural interfaces hit by mutations yield insights into pathogenesis. Abstract | Full Text | PDF Research Top Articles Generation of human vascular smooth muscle subtypes provides insight into embryological origin-dependent disease susceptibility pp165 - 173 Christine Cheung, Andreia S Bernardo, Matthew W B Trotter, Roger A Pedersen and Sanjay Sinha doi:10.1038/nbt.2107 Vascular smooth muscle cells have multiple embryological origins. Cheung et al. present a chemically defined protocol for differentiating human pluripotent stem cells into vascular smooth muscle subtypes arising from neuroectoderm, lateral plate mesoderm and paraxial mesoderm. Abstract | Full Text | PDF See also: News and Views by Majesky & Mummery Genome sequencing reveals agronomically important loci in rice using MutMap pp174 - 178 Akira Abe, Shunichi Kosugi, Kentaro Yoshida, Satoshi Natsume, Hiroki Takagi, Hiroyuki Kanzaki, Hideo Matsumura, Kakoto Yoshida, Chikako Mitsuoka, Muluneh Tamiru, Hideki Innan, Liliana Cano, Sophien Kamoun and Ryohei Terauchi doi:10.1038/nbt.2095 Genetic analysis of agronomic traits in crops is complicated by the long generation times and challenges of growing and phenotyping plants in large field trials. Abe et al. show how whole genome resequencing can be used to identify the genetic basis of subtle phenotypic traits in rice. Abstract | Full Text | PDF Letters Gap junction inhibition prevents drug-induced liver toxicity and fulminant hepatic failure pp179 - 183 Suraj J Patel, Jack M Milwid, Kevin R King, Stefan Bohr, Arvin Iracheta-Velle, Matthew Li, Antonia Vitalo, Biju Parekkadan, Rohit Jindal and Martin L Yarmush doi:10.1038/nbt.2089 Liver toxicity is one of the most common reasons for abandoning new drugs in development or withdrawing approved drugs from the market. Patel et al. show that in mice drug-induced liver injury can be limited by small-molecule inhibitor of the gap-junctional protein connexin 32. First paragraph | Full Text | PDF Conjugation site modulates the in vivo stability and therapeutic activity of antibody-drug conjugates pp184 - 189 Ben-Quan Shen, Keyang Xu, Luna Liu, Helga Raab, Sunil Bhakta, Margaret Kenrick, Kathryn L Parsons-Reponte, Janet Tien, Shang-Fan Yu, Elaine Mai, Dongwei Li, Jay Tibbitts, Jakub Baudys, Ola M Saad, Suzie J Scales, Paul J McDonald, Philip E Hass, Charles Eigenbrot, Trung Nguyen, Willy A Solis, Reina N Fuji, Kelly M Flagella, Darshana Patel, Susan D Spencer, Leslie A Khawli, Allen Ebens, Wai Lee Wong, Richard Vandlen, Surinder Kaur, Mark X Sliwkowski, Richard H Scheller, Paul Polakis and Jagath R Junutula doi:10.1038/nbt.2108 Conjugating drugs to therapeutic antibodies is a promising strategy to increase their therapeutic efficacy. Shen et al. show that the local chemical environment of the conjugation site influences the in vivo stability and efficacy of the modified antibodies. First paragraph | Full Text | PDF Increased Diels-Alderase activity through backbone remodeling guided by Foldit players pp190 - 192 Christopher B Eiben, Justin B Siegel, Jacob B Bale, Seth Cooper, Firas Khatib, Betty W Shen, Foldit Players, Barry L Stoddard, Zoran Popovic and David Baker doi:10.1038/nbt.2109 Baker and colleagues have already shown that protein folding can be turned into an online game played by nonscientists. Now, Foldit players tackle the problem of increasing an enzyme's catalytic activity—with promising results. First paragraph | Full Text | PDF Errata Top Erratum: Factors influencing agbiotech adoption and development in sub-Saharan Africa p193 Obidimma C Ezezika, Abdallah S Daar, Kathryn Barber, Justin Mabeya, Fiona Thomas, Jennifer Deadman, Debbie Wang and Peter A Singer doi:10.1038/nbt0212-193a Full Text | PDF Erratum: Amelioration of sepsis by inhibiting sialidase-mediated disruption of the CD24-SiglecG interaction p193 Guo-Yun Chen, Xi Chen, Samantha King, Karen A Cavassani, Jiansong Cheng, Xincheng Zheng, Hongzhi Cao, Hai Yu, Jingyao Qu, Dexing Fang, Wei Wu, Xue-Feng Bai, Jin-Qing Liu, Shireen A Woodiga, Chong Chen, Lei Sun, Cory M Hogaboam, Steven L Kunkel, Pan Zheng and Yang Liu doi:10.1038/nbt0212-193b Full Text | PDF Corrigenda Top Corrigendum: Industry continues dabbling with open innovation models p193 Cormac Sheridan doi:10.1038/nbt0212-193c Full Text | PDF Corrigendum: FDA panel votes to pull Avastin in breast cancer, again p193 Mark Ratner doi:10.1038/nbt0212-193d Full Text | PDF Corrigendum: Chinese vaccine developers gain WHO imprimatur p193 Hepeng Jia and Karen Carey doi:10.1038/nbt0212-193e Full Text | PDF Corrigendum: Intellectual property, technology transfer and manufacture of low-cost HPV vaccines in India p193 Swathi Padmanabhan, Tahir Amin, Bhaven Sampat, Robert Cook-Deegan and Subhashini Chandrasekharan doi:10.1038/nbt0212-193f Full Text | PDF Careers and Recruitment Top Fourth-quarter biotech job picture p195 Michael Francisco doi:10.1038/nbt.2123 Full Text | PDF People People p196 doi:10.1038/nbt.2124 Full Text | PDF Top Advertisement Miami 2012 Winter Symposium: Nanotechnology in Biomedicine February 26-29, 2012 • Miami, FL, USA The 45th Miami Winter Symposium will bring together leaders in the field to discuss breakthroughs in new nanomaterials and the challenges in translating these materials into products for the clinic and laboratory. 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