Nature Biotechnology Contents: Volume 30 pp 725 - 804

TABLE OF CONTENTS August 2012 Volume 30, Issue 8 In This Issue Editorial News News Feature Bioentrepreneur Correspondence Features News and Views Research Highlights Computational Biology Research Careers and Recruitment Advertisement Genome editing with pico precision and mega flexibility GeneArt® Precision TALs provide DNA-binding proteins for more precise targeting and genome editing. Target any locus in the genome. Choose your effectors and Gateway® technology–compatible vector. Your clone will typically be delivered within 3 weeks after submitting your order. Learn more Subscribe   Facebook   RSS   Recommend to library   Twitter   Advertisement BIOPHARMA DEALMAKERS Company Profiles and Partnering Opportunities   Advertisement Nurture your career with the new-look Naturejobs As the world's largest dedicated jobs boards for the scientific community, Naturejobs is the ideal resource to build your career. Our new and improved functionality enables you to search, save and apply for jobs quickly and easily. Search over 10,000 vacancies to find exactly the right job for you at: www.naturejobs.com.   Advertisement BioPartnering Future Europe™ (BPFE) 7-9 October 2012 Square Brussels Meeting Centre, Brussels, Belgium TVG invites you to Europe's longest running life science partnering event BioPartnering Future Europe™ (BPFE). Partner and collaborate with global life science industry leaders at this Pan-European event. www.techvision.com/bpfe/?src=innavaroph   In This Issue Top In this issue   ppvii - viii doi:10.1038/nbt.2336 Editorial Top Can biotech spur job creation?   p725 doi:10.1038/nbt.2334 Will investment in biotech really lead to substantial job growth in the future? News Top Shire punts on bioscaffolds for cell-based regenerative medicine   pp727 - 728 Mark Ratner doi:10.1038/nbt0812-727 T-DM1 impresses at ASCO   p728 Malini Guha doi:10.1038/nbt0812-728 Cautious optimism surrounds early clinical data for PD-1 blocker   pp729 - 730 Cormac Sheridan doi:10.1038/nbt0812-729 Amylin's $7 billion GLP-1 deal   p730 Brian Orelli doi:10.1038/nbt0812-730a Agilent buys Her2 test firm   p730 Susan Aldridge doi:10.1038/nbt0812-730b Genentech's Alzheimer's antibody trial to study disease prevention   pp731 - 732 Ken Garber doi:10.1038/nbt0812-731 Rare-disease drugs boosted by new Prescription Drug User Fee Act   pp733 - 734 Jeffrey L Fox doi:10.1038/nbt0812-733 Around the world in a month   p734 doi:10.1038/nbt0812-734 Incentives aim to boost antibiotic development   p735 Josh P Roberts doi:10.1038/nbt0812-735a Gilead/BMS ponder HCV combo   p735 Karen Carey doi:10.1038/nbt0812-735b Indian Bt cotton discounted   p735 Killugudi Jayaraman doi:10.1038/nbt0812-735c Destruction of transgenic olive field trial dubbed 'vandalism'   p736 Anna Meldolesi doi:10.1038/nbt0812-736 Investors boost Canadian startups but public sector underperforms   p737 Emily Waltz doi:10.1038/nbt0812-737 Data Page Biotech weathers 2Q12 slump   p738 Walter Yang doi:10.1038/nbt.2332 News Feature Top Adult stem cell therapies walk the line   pp739 - 741 Laura DeFrancesco doi:10.1038/nbt.2321 Tension between practitioners who believe autologous stem cells should be considered a service and the FDA, which considers some of them biologics, has come to a head in recent months. Laura DeFrancesco investigates. Bioentrepreneur Top It's the problem, stupid!   pp742 - 744 Tillman Gerngross doi:10.1038/nbt.2301 Correspondence Top In support of the European Union biosimilar framework   pp745 - 748 Christian K Schneider, John J Borg, Falk Ehmann, Niklas Ekman, Esa Heinonen, Kowid Ho, Marcel H Hoefnagel, Roeland Martijn van der Plas, Sol Ruiz, Antonius J van der Stappen, Robin Thorpe, Klara Tiitso, Asterios S Tsiftsoglou, Camille Vleminckx, Guenter Waxenecker, Mats Welin, Martina Weise, Jean-Hugues Trouvin and on behalf of the Working Party on Similar Biological (Biosimilar) Medicinal Products (BMWP) and the Biologicals Working Party (BWP) of the Committee for Medicinal Products for Human Use (CHMP):  doi:10.1038/nbt.2322 Reply to In support of the European Union biosimilar framework   pp748 - 749 doi:10.1038/nbt.2327 Silos hamstring Chinese plant biotech sector   pp749 - 750 Ruifa Hu, Jinyang Cai, Jikun Huang and Xiaobing Wang doi:10.1038/nbt.2323 Features Top Public biotech 2011—the numbers   pp751 - 757 Brady Huggett and Riku Lahteenmaki doi:10.1038/nbt.2320 The financial performance of the public biotech sector was remarkably buoyant last year, but a few worrying clouds hover on the horizon. Patents Stealing fire: a retrospective survey of biotech patent claims in the wake of Mayo v. Prometheus    pp758 - 760 Elizabeth J Haanes and Jaume M Canaves doi:10.1038/nbt.2318 The Prometheus decision could have dramatic and long-lasting effects on the protection of biotech-related inventions, especially in the areas of diagnostics, biomarkers and personalized medicine. Recent patent applications in metabolomics   p761 doi:10.1038/nbt.2343 News and Views Top Channeling DNA for optical mapping   pp762 - 763 Yael Michaeli and Yuval Ebenstein doi:10.1038/nbt.2324 Stretching DNA molecules in nanochannels allows structural and copy-number variations to be visualized like beads on a string. See also: Research by Lam et al. Transcriptome sequencing of single cells with Smart-Seq   pp763 - 765 Jillian J Goetz and Jeffrey M Trimarchi doi:10.1038/nbt.2325 A method for performing RNA-Seq on picograms of mRNA facilitates gene expression profiling of rare cells. See also: Research by Ramskold et al. The tomato genome fleshed out   pp765 - 767 Todd P Michael and Rob Alba doi:10.1038/nbt.2319 Sequencing of the tomato genome reveals key events in the evolution of fruit size, texture, flavor and nutritional quality. Biotechnology JOBS of the week Bioinformatician, Department of Oncology-Pathology Karolinska Instituet Postgraduate opportunities in Pharmaceutical Biotechnology MSc De Montfort University Post Doctoral Fellow Buck Institute for Research on Aging Eckenstein-Geigy Professorship in Paediatric Pharmacology The University of Basel Technical Assistant / Bioengineer / Master Biotechnology GlycoThera GmbH More Science jobs from Biotechnology EVENT 15th European Biotechnology Congress (ECB15) & Biochemistry Symposium (ESBES) September 23-26, 2012 Istanbul, Turkey More science events from Research Highlights Top Haplotype roundup | Who's eating who in the human gut? | Shear drug delivery | FlAsH of insight into HIV | Complex mammalian cell circuit design Computational Biology Top Profile Eric Schadt   pp769 - 770 doi:10.1038/nbt.2331 Research Top Articles Genome mapping on nanochannel arrays for structural variation analysis and sequence assembly   pp771 - 776 Ernest T Lam, Alex Hastie, Chin Lin, Dean Ehrlich, Somes K Das, Michael D Austin, Paru Deshpande, Han Cao, Niranjan Nagarajan, Ming Xiao and Pui-Yan Kwok doi:10.1038/nbt.2303 Optical maps of a genome, which are generated by imaging labeled single molecules of DNA, facilitate structural variation analysis and sequence assembly. Lam et al. immobilize DNA molecules in nanoscale channels, increasing the accuracy and throughput of the mapping process. See also: News and Views by Michaeli & Ebenstein Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells   pp777 - 782 Daniel Ramskold, Shujun Luo, Yu-Chieh Wang, Robin Li, Qiaolin Deng, Omid R Faridani, Gregory A Daniels, Irina Khrebtukova, Jeanne F Loring, Louise C Laurent, Gary P Schroth and Rickard Sandberg doi:10.1038/nbt.2282 RNA-Seq of single cells has been limited by biases in transcript coverage and unknown technical variability. Ramskold et al. describe a protocol to reproducibly recover full-length transcripts and use it to quantitatively analyze splice isoforms in single cells. See also: News and Views by Goetz & Trimarchi Derivation of blood-brain barrier endothelial cells from human pluripotent stem cells   pp783 - 791 Ethan S Lippmann, Samira M Azarin, Jennifer E Kay, Randy A Nessler, Hannah K Wilson, Abraham Al-Ahmad, Sean P Palecek and Eric V Shusta doi:10.1038/nbt.2247 Lippmann et al. present a protocol for differentiating human pluripotent stem cells into blood-brain barrier endothelial cells. The cells should be useful for studying this endothelial barrier, including screening for drugs that can cross from the blood to the brain. Letters A tissue-engineered jellyfish with biomimetic propulsion   pp792 - 797 Janna C Nawroth, Hyungsuk Lee, Adam W Feinberg, Crystal M Ripplinger, Megan L McCain, Anna Grosberg, John O Dabiri and Kevin Kit Parker doi:10.1038/nbt.2269 Nawroth et al. combine rat cardiomyocytes and silicone polymer to make a jellyfish replica that mimics the propulsive behavior of its live counterpart. The design principles guiding this feat may facilitate tissue engineering of muscular organs. Associative transcriptomics of traits in the polyploid crop species Brassica napus    pp798 - 802 Andrea L Harper, Martin Trick, Janet Higgins, Fiona Fraser, Leah Clissold, Rachel Wells, Chie Hattori, Peter Werner and Ian Bancroft doi:10.1038/nbt.2302 Sequencing a genome and identifying genetic markers lays the groundwork for genome-wide association studies, but can be difficult to achieve for polyploid species. Harper et al. present an approach for performing association studies using genetic maps and markers generated from transcriptome sequencing data alone and apply it to the polyploid crop Brassica napus. Careers and Recruitment Top Second-quarter biotech job picture   p803 Michael Francisco doi:10.1038/nbt.2326 People People   p804 doi:10.1038/nbt.2342 Top Advertisement Feel like your paper is lost in a sea of submissions? 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