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Volume 13 Issue 4
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Comment |
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Economies of scale
Gregory A Petsko Genome Biology 2012, 13:154 (30 April 2012)
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Editor’s summary
The current glut of postdoctoral and graduate scientists can be addressed by applying economic principles.
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The Arabidopsis clock: time for an about-face?
David E Somers Genome Biology 2012, 13:153 (27 April 2012)
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Editor’s summary
David Somers highlights three recent papers that arrive at a surprising conclusion about how TOC1 functions in the plant circadian clock
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We are what we eat: how the diet of infants affects their gut microbiome
Mihai Pop Genome Biology 2012, 13:152 (30 April 2012)
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Editor’s summary
We are what we eat: Mihai Pop highlights our Research article investigating the impact of diet on an infant's gut
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Review |
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Current challenges in de novo plant genome sequencing and assembly
Michael C Schatz, Jan Witkowski, W Richard McCombie Genome Biology 2012, 13:243 (27 April 2012)
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Editor’s summary
Michael Schatz and colleagues assess challenges in de novo plant genome assembly and review the best practices for the plant community
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Genetic architecture of body size in mammals
Kathryn E Kemper, Peter M Visscher, Michael E Goddard Genome Biology 2012, 13:244 (30 April 2012)
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Editor’s summary
Peter Visscher and colleagues survey the current known mutations affecting body size in humans, mice, dogs and livestock species
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Research |
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Regulation of transcriptome, translation, and proteome in response to environmental stress in fission yeast
Daniel H Lackner, Michael W Schmidt, Shuangding Wu, Dieter A Wolf, Jürg Bähler Genome Biology 2012, 13:R25 (18 April 2012)
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Editor’s summary
Changes in transcription and translation are measured in fission yeast exposed to different stresses to elucidate layers of gene expression control
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High levels of RNA-editing site conservation amongst 15 laboratory mouse strains
Petr Danecek, Christoffer Nellåker, Rebecca E McIntyre, Jorge E Buendia-Buendia, Suzannah Bumpstead, Chris P Ponting, Jonathan Flint, Richard Durbin, Thomas M Keane, David J Adams Genome Biology 2012, 13:r26 (23 April 2012)
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Editor’s summary
An extensive, genome-wide analysis of RNA editing in the brain transcriptomes of 15 mouse strains
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Genome-wide identification and characterization of replication origins by deep sequencing
Jia Xu, Yoshimi Yanagisawa, Alexander M Tsankov, Christopher Hart, Keita Aoki, Naveen Kommajosyula, Kathleen E Steinmann, James Bochicchio, Carsten Russ, Aviv Regev, Oliver J Rando, Chad Nusbaum, Hironori Niki, Patrice Milos, Zhiping Weng, Nicholas Rhind Genome Biology 2012, 13:R27 (24 April 2012)
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Editor’s summary
Single-molecule deep sequencing and comparative genomics in three Schizosaccharomyces species sheds light on the nature of replication origins
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Mediation of Drosophila autosomal dosage effects and compensation by network interactions
John H Malone, Dong-Yeon Cho, Nicolas R Mattiuzzo, Carlo G Artieri, Lichun Jiang, Ryan K Dale, Harold E Smith, Jennifer McDaniel, Sarah Munro, Marc Salit, Justen Andrews, Teresa M Przytycka, Brian Oliver Genome Biology 2012, 13:R28 (24 April 2012)
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Editor’s summary
A comprehensive RNA-seq analysis of autosomal dosage effects and compensation in 21 autosomal deficiency Drosophila lines
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Global mRNA decay analysis at single nucleotide resolution reveals segmental and positional degradation patterns in a Gram-positive bacterium
Simen M Kristoffersen, Chad Haase, M Ryan Weil, Karla D Passalacqua, Faheem Niazi, Stephen K Hutchison, Brian Desany, Anne-Brit Kolstø, Nicolas J Tourasse, Timothy D Read, Ole Økstad Genome Biology 2012, 13:R30 (26 April 2012)
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Editor’s summary
RNA-seq is used to determine mRNA decay rates to single nucleotide resolution in the Gram positive bacterium Bacillus cereus
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Genetic basis of transcriptome differences between the founder strains of the rat HXB/BXH recombinant inbred panel
Marieke Simonis, Santosh S Atanur, Sam Linsen, Victor Guryev, Frans-Paul Ruzius, Laurence Game, Nico Lansu, Ewart de Bruijn, Sebastiaan van Heesch, Steven JM Jones, Michal Pravenec, Tim J Aitman, Edwin Cuppen Genome Biology 2012, 13:r31 (27 April 2012)
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Editor’s summary
The genome and transcriptome sequences of the founder strains of the HXB/BXH panel of recombinant inbred rat strains
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A metagenomic study of diet-dependent interaction between gut microbiota and host in infants reveals differences in immune response
Scott Schwartz, Iddo Friedberg, Ivan V Ivanov, Laurie A Davidson, Jennifer S Goldsby, David B Dahl, Damir Herman, Mei Wang, Sharon M Donovan, Robert S Chapkin Genome Biology 2012, 13:r32 (30 April 2012)
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Editor’s summary
A novel host-microbiome analysis method reveals a transcriptional immune response in the breast-fed infant gut associated with diet-specific microbiota
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RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations
Mauro AA Castro, Xin Wang, Michael NC Fletcher, Kerstin B Meyer, Florian Markowetz Genome Biology 2012, 13:R29 (24 April 2012)
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Editor’s summary
A method for visualizing complex, large-scale networks that combines R/Bioconductor with Java, and allows the incorporation of plug-ins
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