Nature Reviews Genetics Contents February 2012 Volume 13 Number 2 pp 71-146

TABLE OF CONTENTS
February 2012 Volume 13 Number 2		Advertisement
Impact Factor 32.745 *	In this issue Research Highlights Progress Reviews Correspondence Also this month Article series: Applications of next-generation sequencing Study designs Genome-wide association studies  Featured article: Rare and common variants: twenty arguments Greg Gibson	Optimal NGS library construction at LIGHTNING speed! Create high-quality genomic libraries for any sequencing platform and achieve successful, cost-efficient next-generation sequencing experiments in 1/5th the time of competing systems. Diagenode's Bioruptor Sonicator is proven as the shearing device of choice providing optimal yields, quality, and fragment size at the industry's best value. Learn how Diagenode will maximize your sequencing results.
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RESEARCH HIGHLIGHTS Top Gene regulation: Resolving transcription factor binding p71 | doi:10.1038/nrg3153 PDF Synthetic biology: Simplifying design p72 | doi:10.1038/nrg3157 PDF Differentiation: Racing to decide p72 | doi:10.1038/nrg3158 PDF RNA stability: Remember your driver p72 | doi:10.1038/nrg3159 PDF Gene expression: Genetic support network to the rescue p74 | doi:10.1038/nrg3154 PDF Small RNAs: Little transgressions p75 | doi:10.1038/nrg3155 PDF Epigenetics: Dynamic DNA methylation p75 | doi:10.1038/nrg3156 PDF IN BRIEF Mutation: Linking transcription and genome instability | Bioinformatics: Data compression facilitates genome assembly | Differentiation: Asymmetry caused by replication-coupled chromatin assembly | Development: Role found for DNMT3A in somatic stem cells | Gene expression: A simple model for ensuring signalling specificity | Non-coding RNA: Zebrafish provide insight into lincRNA evolution | Evolution: Paths of antibiotic resistance | Genomics: Repetitive elements underestimated? PDF Genetics JOBS of the week PhD Students in Molecular Medicine Institute for Molecular Medicine Finland (FIMM) / Nordic EMBL Partnership PhD Students in Molecular Medicine Centre for Molecular Medicine Norway (NCMM) / Nordic EMBL Partnership Scientific Programmer - Mouse Informatics European Bioinformatics Institute (EBI) Postdoctoral Fellowship in Computational Biology UCSF Postdoctoral Research Trainee - Ophthalmology University of Tennessee Health Science Center More Science jobs from Genetics EVENT Genomic Epidemiology of Malaria 10.-13.06.12 Cambridge, UK More science events from
PROGRESS		Top
Article series: Applications of next-generation sequencing Protein–RNA interactions: new genomic technologies and perspectives Julian König, Kathi Zarnack, Nicholas M. Luscombe & Jernej Ule p77 | doi:10.1038/nrg3141 Protein–RNA interactions are central to the regulation of gene expression. Emerging technologies for pinpointing these interactions, both in large complexes and between individual proteins and RNA, are discussed. Methods for analysing these data are also considered. Abstract | Full Text | PDF
REVIEWS		Top
Crop genomics: advances and applications Peter L. Morrell, Edward S. Buckler & Jeffrey Ross-Ibarra p85 | doi:10.1038/nrg3097 The increased availability of reference genomes and the ability to obtain resequencing data in larger quantities are changing the capabilities of crop comparative genomics. Insights into the genetic basis of domestication and agriculturally important traits are emerging, and improved genomic tools have implications for crop breeders and evolutionary biologists. Abstract | Full Text | PDF
Epigenetics and the environment: emerging patterns and implications Robert Feil & Mario F. Fraga p97 | doi:10.1038/nrg3142 There is considerable interest in exploring whether environmental factors, including chemicals and dietary components, can alter epigenomes. Environmentally induced changes in epigenetic marks are important in the development of several species, such as plants and insects; whether they influence human disease will be an area for future research. Abstract | Full Text | PDF
Article series: Study designs Computer simulations: tools for population and evolutionary genetics Sean Hoban, Giorgio Bertorelle & Oscar E. Gaggiotti p110 | doi:10.1038/nrg3130 Computer simulations can be valuable components of studies in many fields, including population genetics, evolutionary biology, genetic epidemiology and ecology. The recent increase in the available range of software packages is now making simulation an accessible option for researchers with limited bioinformatics experience. Abstract | Full Text | PDF | Supplementary information
Dosage compensation in Drosophila melanogaster: epigenetic fine-tuning of chromosome-wide transcription Thomas Conrad & Asifa Akhtar p123 | doi:10.1038/nrg3124 Many organisms have evolved dosage compensation mechanisms to normalize gene expression levels when copy numbers of sex chromosomes and autosomes are unequal. This Review discusses how multiple epigenetic processes fine-tune the twofold upregulation of gene expression across the entire male X chromosome of Drosophila melanogaster. Abstract | Full Text | PDF
Article series: Genome-wide association studies Rare and common variants: twenty arguments Greg Gibson p135 | doi:10.1038/nrg3118 This Review presents arguments for and against each of two main models for the genetic basis of complex traits. It concludes that the infinitesimal model is essentially correct, but that rare, large-effect alleles also make an essential contribution to disease risk. Abstract | Full Text | PDF
CORRESPONDENCE		Top
Correspondence: Familial risks in understanding type 1 diabetes genetics Kari Hemminki p146 | doi:10.1038/nrg3069-c1 Full Text | PDF
Author Reply: Response to 'Familial risks in understanding type 1 diabetes genetics' Constantin Polychronakos & Quan Li p146 | doi:10.1038/nrg3069-c2 Full Text | PDF
CORRESPONDENCE		Top
Correspondence: Europe and direct-to-consumer genetic tests Heidi Carmen Howard & Pascal Borry p146 | doi:10.1038/nrg3073-c1 Full Text | PDF
Author Reply: Response to 'Europe and direct-to-consumer genetic tests' Larry J. Kricka, Paolo Fortina, Yuan Mai & George P. Patrinos p146 | doi:10.1038/nrg3073-c2 Full Text | PDF
Corrigendum: Repetitive DNA and next-generation sequencing: computational challenges and solutions Todd J. Treangen & Steven L. Salzberg p146 | doi:10.1038/nrg3164 Full Text | PDF
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*2010 Journal Citation Report (Thomson Reuters, 2011)

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