Nature Biotechnology Contents: Volume 33 pp 671 - 780

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TABLE OF CONTENTS July 2015 Volume 33, Issue 7 Editorial News Bioentrepreneur Opinion and Comment Features News and Views Research Careers and Recruitment Advertisement   CRISPR/Cas9 resources from GenScript licensed from the Broad Institute  gRNA constructs include:   •  gRNA sequence design   •  all-in-one and lentiviral      vectors Libraries for genome-wide screening:   •  GeCKO v2 for knock-               out/LOF   •  SAM for transcription      activation/GOF   Subscribe   Facebook   RSS   Recommend to library   Twitter   Advertisement World Bispecific, September 22nd-24th 2015 | Boston MA   The 6th World Bispecific will help you develop more clinically successful bispecifics. The agenda has been crafted to solve the biggest challenges faced by drug developers: validating synergistic targets, optimizing bispecific development and maximizing manufacturability.   Visit www.bispecific.com to download the full agenda.   Advertisement BIOPHARMA DEALMAKERS Company Profiles and Partnering Opportunities   Advertisement nature.com webcasts Nature Publishing Group presents a custom webcast on: 3D cancer tissue engineering and therapeutic response using flow cytometry July 15, 2015 8am PDT / 11am EDT / 4pm BST / 5pm CEST  Register for the webcast and live Q & A session  Sponsored by: EMD Millipore        Editorial Top Modeling credentials   p671 doi:10.1038/nbt.3279 The time has come to systematically assess the pros and cons of different mouse models as predictors of patient responses to cancer therapies. News Top Immuno-oncology moves beyond PD-1   pp673 - 675 Cormac Sheridan doi:10.1038/nbt0715-673 Genome in a bottle—a human DNA standard   p675 doi:10.1038/nbt0715-675a GINA and the 'devious defecator' case   p675 doi:10.1038/nbt0715-675b Gilead wades into epigenetics   p676 doi:10.1038/nbt0715-676a Rivals unite in biosimilars push   p676 doi:10.1038/nbt0715-676b Migraine mAbs crowd into late-stage trials   pp676 - 677 Gunjan Sinha doi:10.1038/nbt0715-676c Gene therapy 'cure' for blindness wanes   p678 Anna Azvolinsky doi:10.1038/nbt0715-678 Alexion pays big for Synageva's rare disease drug candidate   p679 Mark Ratner doi:10.1038/nbt0715-679 Bird flu fight could cost $500 million   p680 doi:10.1038/nbt0715-680a Biotechs recoil at hedge fund manager's patent attacks   pp680 - 681 Melanie Senior doi:10.1038/nbt0715-680b First stress-tolerant soybean gets go-ahead in Argentina   p682 Emily Waltz doi:10.1038/nbt0715-682 Saving rhinos with 3D printed horns   p683 doi:10.1038/nbt0715-683a Around the world in a month   p683 doi:10.1038/nbt0715-683b Advertisement Nature Communications is now fully open access All new submissions if accepted, will be published open access and an article processing charge will apply. For more information visit the website. Visit our open access funding page or contact openaccess@nature.com to learn more on APC funding. Bioentrepreneur Top Data page Research biotech patenting 2014   p684 Brady Huggett and Kathryn Paisner doi:10.1038/nbt.3288 Opinion and Comment Top Correspondence Will clinical trial data disclosure reduce incentives to develop new uses of drugs?   pp685 - 686 W Nicholson Price II and Timo Minssen doi:10.1038/nbt.3243 Toward effective software solutions for big biology   pp686 - 687 Pjotr Prins, Joep de Ligt, Artem Tarasov, Ritsert C Jansen, Edwin Cuppen et al. doi:10.1038/nbt.3240 The constrained prescription, interchangeability and substitution of biosimilars   pp688 - 689 Paola Minghetti, Paolo Rocco and Huub Schellekens doi:10.1038/nbt.3272 Good laboratory practice for clinical next-generation sequencing informatics pipelines   pp689 - 693 Amy S Gargis, Lisa Kalman, David P Bick, Cristina da Silva, David P Dimmock et al. doi:10.1038/nbt.3237 Site-specific conjugation improves therapeutic index of antibody drug conjugates with high drug loading   pp694 - 696 Pavel Strop, Kathy Delaria, Davide Foletti, Jody Melton Witt, Adela Hasa-Moreno et al. doi:10.1038/nbt.3274 Commentary A regulatory framework emerges for digital medicine   pp697 - 702 Eric Elenko, Austin Speier and Daphne Zohar doi:10.1038/nbt.3284 Clear and logical regulatory guidelines on the process and requirements for approval of health apps and wearable sensors will be essential for the digital medicine sector to unleash its full potential. Features Top Public biotech in 2014—the numbers   pp703 - 709 Chris Morrison and Riku Lahteenmaki doi:10.1038/nbt.3278 2014 was another banner year for public companies, building on the strength of 2013 and adding to the unprecedented biotech bull run. Patents Safe harbors in Europe: an update on the research and Bolar exemptions to patent infringement   pp710 - 715 Andras Kupecz, Kristof Roox, Christian Dekoninck, Denis Schertenleib, Marco Stief et al. doi:10.1038/nbt.3273 Though the major European Union member states all have research and Bolar exemptions in their patent laws, the scope and effect differs considerably from country to country. Recent patents in hematopoietic cell gene therapy   p716 doi:10.1038/nbt.3292 News and Views Top Illuminating the dark matter of shotgun proteomics   pp717 - 718 Owen S Skinner and Neil L Kelleher doi:10.1038/nbt.3287 Many of the unassignable spectra in proteomics data represent peptides with post-translational modifications. See also: Research by Chick et al. Reigning in regulatory T-cell function   pp718 - 719 Catherine Konopacki, George Plitas and Alexander Rudensky doi:10.1038/nbt.3285 An approach to inhibit the immune-suppressive function of regulatory T cells is demonstrated in a model of graft-versus-host disease. Molecular networks in context   pp720 - 721 Andrew M Gross and Trey Ideker doi:10.1038/nbt.3283 Network biology is beginning to tackle the complexities of multicellular systems and disease associations. Research Highlights   p721 doi:10.1038/nbt.3281 Biotechnology JOBS of the week W2 Professorship in Natural Product Research with Focus on Insect Biotechnology Justus-Liebig-Universität Gießen Postdoc – DNA Repair / Cancer Genetics Rutgers University Professors in synthetic biology at the Department of Fundamental Microbiology The Faculty of Biology and Medicine of the University of Lausanne, Switzerland PhD Position in Molecular Immunology VIB More Science jobs from Biotechnology EVENT 2nd Biotechnology Transfer & Commercialization Conference September 10, 2015 Philadelphia, USA More science events from Research Top Analysis Analysis of intronic and exonic reads in RNA-seq data characterizes transcriptional and post-transcriptional regulation   pp722 - 729 Dimos Gaidatzis, Lukas Burger, Maria Florescu and Michael B Stadler doi:10.1038/nbt.3269 Comparing exon and intron reads in RNA-seq data reveals the levels of nascent and steady-state RNA. Brief Communications Kinetic fingerprinting to identify and count single nucleic acids   pp730 - 732 Alexander Johnson-Buck, Xin Su, Maria D Giraldez, Meiping Zhao, Muneesh Tewari et al. doi:10.1038/nbt.3246 Single unamplified miRNAs are detected with high specificity by kinetic fingerprinting. Reducing hydrophobicity of homogeneous antibody-drug conjugates improves pharmacokinetics and therapeutic index   pp733 - 735 Robert P Lyon, Tim D Bovee, Svetlana O Doronina, Patrick J Burke, Joshua H Hunter et al. doi:10.1038/nbt.3212 The in vivo efficacy of antibody-drug conjugates is enhanced by decreasing their hydrophobicity. Articles Comprehensive transcriptome analysis using synthetic long-read sequencing reveals molecular co-association of distant splicing events   pp736 - 742 Hagen Tilgner, Fereshteh Jahanbani, Tim Blauwkamp, Ali Moshrefi, Erich Jaeger et al. doi:10.1038/nbt.3242 Illumina-based synthetic long read RNA-seq enables comprehensive analysis of alternative splicing in transcriptomes. A mass-tolerant database search identifies a large proportion of unassigned spectra in shotgun proteomics as modified peptides   pp743 - 749 Joel M Chick, Deepak Kolippakkam, David P Nusinow, Bo Zhai, Ramin Rad et al. doi:10.1038/nbt.3267 In shotgun proteomics experiments, modified peptides account for a large part of the unassigned spectra and can be identified using ultra-tolerant database searches. See also: News and Views by Skinner & Kelleher Letters Optogenetics for in vivo cardiac pacing and resynchronization therapies   pp750 - 754 Udi Nussinovitch and Lior Gepstein doi:10.1038/nbt.3268 In a cardiac application of optogenetics, the beating rate of rat hearts is controlled by light. Photoactivatable CRISPR-Cas9 for optogenetic genome editing   pp755 - 760 Yuta Nihongaki, Fuun Kawano, Takahiro Nakajima and Moritoshi Sato doi:10.1038/nbt.3245 The genome editing activity of CRISPR-Cas9 can be switched on and off by light using split Cas9 fragments fused tophotoinducible dimerization domains. Lineage conversion induced by pluripotency factors involves transient passage through an iPSC stage   pp761 - 768 Ori Bar-Nur, Cassandra Verheul, Andreia G Sommer, Justin Brumbaugh, Benjamin A Schwarz et al. doi:10.1038/nbt.3247 Methods for direct conversion of fibroblasts to other cell types using pluripotency-associated factors generate a transient pluripotent state. Transient acquisition of pluripotency during somatic cell transdifferentiation with iPSC reprogramming factors   pp769 - 774 Itay Maza, Inbal Caspi, Asaf Zviran, Elad Chomsky, Yoach Rais et al. doi:10.1038/nbt.3270 Methods for direct conversion of fibroblasts to other cell types using pluripotency-associated factors generate a transient pluripotent state. Careers and Recruitment Top Emerging network of resources for exploring paths beyond academia   pp775 - 778 Fanuel Muindi and Joseph B Keller doi:10.1038/nbt.3282 An expanding collection of resources is helping trainees acquire important knowledge about careers outside academia. People People   p780 doi:10.1038/nbt.3293 Advertisement Presented by Adaptive Biotechnologies, Nature Immunology, Nature Medicine, Nature Biotechnology, and Nature Genetics IMMUNE PROFILING IN HEALTH AND DISEASE September 9-11, 2015 | Seattle, WA, USA REGISTER NOW!    Natureevents is a fully searchable, multi-disciplinary database designed to maximise exposure for events organisers. The contents of the Natureevents Directory are now live. The digital version is available here. Find the latest scientific conferences, courses, meetings and symposia on natureevents.com. For event advertising opportunities across the Nature Publishing Group portfolio please contact natureevents@nature.com More Nature Events

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