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1.

Study protocol   Open Access

A multi-center study on the regenerative effects of erythropoietin in burn and scalding injuries: study protocol for a randomized controlled trial

Christina Günter, Augustinus Bader, Ulf Dornseifer, Silvia Egert, Sebastian Dunda, Gerrit Grieb, Thomas Wolter, Norbert Pallua, Tobias von Wild, Frank Siemers, Peter Mailänder, Oliver Thamm, Carsten Ernert, Michael Steen, Reiner Sievers, Bert Reichert, Afshin Rahmanian-Schwarz, Hans Schaller, Bernd Hartmann, Max Otte, Victoria Kehl, Christian Ohmann, Wolfgang Jelkmann, Hans-Günther Machens Trials 2013, 14:124 (3 May 2013)

Abstract | Full text | PDF

2.

Opinion   Subscription Highly Accessed

Sixty years of genome biology

W Doolittle, Peter Fraser, Mark B Gerstein, Brenton R Graveley, Steven Henikoff, Curtis Huttenhower, Alicia Oshlack, Chris P Ponting, John L Rinn, Michael C Schatz, Jernej Ule, Detlef Weigel, George M Weinstock Genome Biology 2013, 14:113 (25 April 2013)

Abstract | Full text | PDF | PubMed |  Editor’s summary

Members of Genome Biology's Editorial Board select their highlights from the 60 years of genome biology that followed the double helix

3.

Method   Open Access Highly Accessed

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

Daehwan Kim, Geo Pertea, Cole Trapnell, Harold Pimentel, Ryan Kelley, Steven L Salzberg Genome Biology 2013, 14:R36 (25 April 2013)

Abstract | Provisional PDF | PubMed |  Editor’s summary

A major update to TopHat, the popular Bowtie-based spliced aligner

4.

Meeting abstract   Open Access

Basic and clinical immunology – 3013. Resource limited estimation of HIV-1 viral load from CD4 cell count using coupled bacterial foraging/jumping frogs algorithm

Kamalanand Krishnamurthy, Mannar Ponnuswamy World Allergy Organization Journal 2013, 6(Suppl 1):P189 (23 April 2013)

Full text | PDF

5.

Research article   Open Access Highly Accessed

Monocytes/macrophages support mammary tumor invasivity by co-secreting lineage-specific EGFR ligands and a STAT3 activator

Philip Vlaicu, Philipp Mertins, Thomas Mayr, Peter Widschwendter, Beyhan Ataseven, Bernhard Högel, Wolfgang Eiermann, Pjotr Knyazev, Axel Ullrich BMC Cancer 2013, 13:197 (18 April 2013)

Abstract | Full text | PDF | PubMed

6.

Methodology article   Open Access

Modular glycosphere assays for high-throughput functional characterization of influenza viruses

Sven N Hobbie, Karthik Viswanathan, Ido Bachelet, Udayanath Aich, Zachary Shriver, Vidya Subramanian, Rahul Raman, Ram Sasisekharan BMC Biotechnology 2013, 13:34 (15 April 2013)

Abstract | Provisional PDF | PubMed

7.

Research article   Open Access

The ESR1 gene is associated with risk for canine mammary tumours

Kaja Sverdrup Borge, Malin Melin, Patricio Rivera, Stein Istre Thoresen, Matthew Thomas Webster, Henrik von Euler, Kerstin Lindblad-Toh, Frode Lingaas BMC Veterinary Research 2013, 9:69 (10 April 2013)

Abstract | Full text | PDF | PubMed

8.

Poster presentation   Open Access

Chromosomal architecture changes upon cell differentiation

Maxim Imakaev, Geoffrey Fudenberg, Leonid Mirny Epigenetics & Chromatin 2013, 6(Suppl 1):P130 (8 April 2013)

Full text | PDF

9.

Poster presentation   Open Access

S cerevisiae genome as a confined equilibrium polymer brush

Anton Goloborodko, Jon Belton, Geoffrey Fudenberg, Maxim Imakaev, Job Dekker, Leonid Mirny Epigenetics & Chromatin 2013, 6(Suppl 1):P129 (8 April 2013)

Full text | PDF

10.

Poster presentation   Open Access

Polymer models of yeast S. cerevisiae genome organization

Geoff Fudenberg, Jon-Matthew Belton, Anton Goloborodko, Maxim Imakaev, Job Dekker, Leonid Mirny Epigenetics & Chromatin 2013, 6(Suppl 1):P128 (8 April 2013)

Full text | PDF

11.

Poster presentation   Open Access

Polymer models of topological insulators

Boryana Doyle, Maxim Imakaev, Geoffrey Fudenberg, Leonid Mirny Epigenetics & Chromatin 2013, 6(Suppl 1):P127 (8 April 2013)

Full text | PDF

12.

Review   Open Access Highly Accessed

Fragile X mental retardation protein and synaptic plasticity

Michael S Sidorov, Benjamin D Auerbach, Mark F Bear Molecular Brain 2013, 6:15 (8 April 2013)

Abstract | Full text | PDF | PubMed | F1000 Biology

13.

Method   Open Access Highly Accessed

Computational purification of individual tumor gene expression profiles leads to significant improvements in prognostic prediction

Gerald Quon, Syed Haider, Amit G Deshwar, Ang Cui, Paul C Boutros, Quaid Morris Genome Medicine 2013, 5:29 (28 March 2013)

Abstract | Full text | PDF | PubMed |  Editor’s summary

The ISOpure algorithm generates a sample-specific gene expression profile, from which the impact of heterogeneous tumor composition is removed, improving prediction of clinical outcome.

14.

Original article   Open Access

Social sustainability in certification schemes for biofuel production: an explorative analysis against the background of land use constraints in Brazil

Anna Mohr, Linda Bausch Energy, Sustainability and Society 2013, 3:6 (21 March 2013)

Abstract | Full text | PDF

15.

Book review   Open Access

Review of Tackling Long-Term Global Energy Problems: The Contribution of Social Science by Daniel Spreng, Thomas Flüeler, David L. Goldblatt and Jürg Minsch (Editors)

Linda Bausch, Anna Mohr Energy, Sustainability and Society 2013, 3:5 (20 March 2013)

Abstract | Full text | PDF

16.

Research article   Open Access

A systems-based approach to analyse the host response in murine lung macrophages challenged with respiratory syncytial virus

Laxmi Iyer Ravi, Liang Li, Richard Sutejo, Hui Chen, Pui San Wong, Boon Huan Tan, Richard J Sugrue BMC Genomics 2013, 14:190 (18 March 2013)

Abstract | Full text | PDF | PubMed

17.

Poster presentation   Open Access

Sex-specific chromatin states in mammalian fetal germ cells

Bluma J Lesch, David C Page Epigenetics & Chromatin 2013, 6(Suppl 1):P45 (18 March 2013)

Full text | PDF

18.

Research   Open Access Highly Accessed

Retrotransposition of gene transcripts leads to structural variation in mammalian genomes

Adam D Ewing, Tracy J Ballinger, Dent Earl, Christopher C Harris, Li Ding, Richard K Wilson, David Haussler Genome Biology 2013, 14:R22 (13 March 2013)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

An analysis of gene retrocopy insertion polymorphisms in the germlines of individual humans, chimpanzees and mice, and in cancerous somatic tissues

19.

Research article   Open Access

The mutation rate of mycobacterial repetitive unit loci in strains of M. tuberculosis from cynomolgus macaque infection

Mark N Ragheb, Christopher B Ford, Michael R Chase, Philana Ling Lin, JoAnne L Flynn, Sarah M Fortune BMC Genomics 2013, 14:145 (5 March 2013)

Abstract | Full text | PDF | PubMed

20.

Research article   Open Access

Circulating cardio-enriched microRNAs are associated with long-term prognosis following myocardial infarction

Olof Gidlöf, J Gustav Smith, Kazuma Miyazu, Patrik Gilje, Anna Spencer, Sten Blomquist, David Erlinge BMC Cardiovascular Disorders 2013, 13:12 (28 February 2013)

Abstract | Full text | PDF | PubMed

21.

Poster presentation   Open Access

Migraine without aura: genome-wide association analysis identifies several novel susceptibility

Boukje de Vries, Tobias Freilinger, Verneri Anttila, Rainer Malik, Mikko Kallela, Gisela M Terwindt, Patricia Pozo-Rosich, Bendik Winsvold, Dale R Nyholt, Willebrordus PJ van Oosterhout, Ville Artto, Unda Todt, Eija Hämäläinen, Jèssica Fernández-Morales, Mark A Louter, Mari A Kaunisto, Jean Schoenen, Olli Raitakari, Terho Lehtimäki, Marta Vila-Pueyo, Hartmut Göbel, Erich Wichmann, Cèlia Sintas, Andre G Uitterlinden, Albert Hofman, Fernando Rivadeneira, Axel Heinze, Erling Tronvik, Cornelia M van Duijn, Jaakko Kaprio, Bru Cormand, Maija Wessman, Rune R Frants, Thomas Meitinger, Bertram Müller-Myhsok, John-Anker Zwart, Markus Färkkilä, Alfons Macaya, Michel D Ferrari, Christian Kubisch, Aarno Palotie, Martin Dichgans, Arn MJM van den Maagdenberg, et al. The Journal of Headache and Pain 2013, $article.volume.volumeNumber(Suppl 1):P18 (21 February 2013)

Full text | PDF

22.

Research   Open Access

Premetazoan genome evolution and the regulation of cell differentiation in the choanoflagellate Salpingoeca rosetta

Stephen R Fairclough, Zehua Chen, Eric Kramer, Qiandong Zeng, Sarah Young, Hugh M Robertson, Emina Begovic, Daniel J Richter, Carsten Russ, M Jody Westbrook, Gerard Manning, B Franz Lang, Brian Haas, Chad Nusbaum, Nicole King Genome Biology 2013, 14:R15 (18 February 2013)

Abstract | Provisional PDF | PubMed |  Editor’s summary

Genome sequencing of Salpingoeca rosetta reveals insights into the genome composition of the metazoan ancestor and the evolution of multicellularity

23.

Research article   Open Access Highly Accessed

Genome-wide map of quantified epigenetic changes during in vitro chondrogenic differentiation of primary human mesenchymal stem cells

Sarah R Herlofsen, Jan Christian Bryne, Torill Høiby, Li Wang, Robbyn Issner, Xiaolan Zhang, Michael J Coyne, Patrick Boyle, Hongcang Gu, Leonardo A Meza-Zepeda, Philippe Collas, Tarjei S Mikkelsen, Jan E Brinchmann BMC Genomics 2013, 14:105 (15 February 2013)

Abstract | Full text | PDF | PubMed

24.

Study protocol   Open Access

A phase II, sham-controlled, double-blinded study testing the safety and efficacy of the coronary sinus reducer in patients with refractory angina: study protocol for a randomized controlled trial

E Marc Jolicœur, Shmuel Banai, Timothy D Henry, Marc Schwartz, Serge Doucet, Christopher J White, Elazer Edelman, Stefan Verheye Trials 2013, 14:46 (15 February 2013)

Abstract | Full text | PDF | PubMed

25.

Protocol   Open Access

Individual patient data meta-analysis for the clinical assessment of coronary computed tomography angiography: protocol of the Collaborative Meta-Analysis of Cardiac CT (CoMe-CCT)

Georg M Schuetz, Peter Schlattmann, Stephan Achenbach, Matthew Budoff, Mario J Garcia, Robert Roehle, Gianluca Pontone, Willem Bob Meijboom, Daniele Andreini, Hatem Alkadhi, Lily Honoris, Nuno Bettencourt, Jörg Hausleiter, Sebastian Leschka, Bernhard L Gerber, Matthijs FL Meijs, Abbas Arjmand Shabestari, Akira Sato, Elke Zimmermann, Uwe J Schoepf, Axel Diederichsen, David A Halon, Vladimir Mendoza-Rodriguez, Ashraf Hamdan, Bjarne L Nørgaard, Harald Brodoefel, Kristian A Øvrehus, Shona MM Jenkins, Bjørn A Halvorsen, Johannes Rixe et al. Systematic Reviews 2013, 2:13 (15 February 2013)

Abstract | Full text | PDF | PubMed

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