The genomic basis of environmental adaptation in house mice

Winter storms drive rapid phenotypic, regulatory, and genomic shifts in the green anole lizard

(2017) Shane C. Campbell-Staton et al.   SCIENCE

Genomics of parallel adaptation at two timescales in Drosophila

(2017) Li Zhao et al.   PLoS Genetics

Shared genetic regulatory networks for cardiovascular disease and type 2 diabetes in multiple populations of diverse ethnicities in the United States

(2017) Le Shu et al.   PLoS Genetics

Nrg4 promotes fuel oxidation and a healthy adipokine profile to ameliorate diet-induced metabolic disorders

(2017) Zhimin Chen et al.   Molecular Metabolism

Association of circulating neuregulin 4 with metabolic syndrome in obese adults: a cross-sectional study

(2016) Chengfu Cai et al.   BMC Medicine

Comparison of serum Neuregulin 4 (Nrg4) levels in adults with newly diagnosed type 2 diabetes mellitus and controls without diabetes

(2016) Yea Eun Kang et al.   DIABETES RESEARCH AND CLINICAL PRACTICE

Genomic Patterns of Geographic Differentiation in Drosophila simulans

(2016) A. Sedghifar et al.   GENETICS

Systematic Review of Metabolic Syndrome Biomarkers: A Panel for Early Detection, Management, and Risk Stratification in the West Virginian Population

(2016) Krithika Srikanthan et al.   International Journal of Medical Sciences

Mouse Genome Database (MGD)-2017: community knowledge resource for the laboratory mouse

(2016) Judith A. Blake et al.   NUCLEIC ACIDS RESEARCH

The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish

(2016) N. M. Reid et al.   SCIENCE

Detection of human adaptation during the past 2000 years

(2016) Yair Field et al.   SCIENCE

Preventing High Fat Diet-induced Obesity and Improving Insulin Sensitivity through Neuregulin 4 Gene Transfer

(2016) Yongjie Ma et al.   Scientific Reports

The Adaptive Significance of Natural Genetic Variation in the DNA Damage Response of Drosophila melanogaster

(2016) Nicolas Svetec et al.   PLoS Genetics

Genomic resources for wild populations of the house mouse, Mus musculus and its close relative Mus spretus

(2016) Bettina Harr et al.   Scientific Data

Genetics of Rapid and Extreme Size Evolution in Island Mice

(2015) M. M. Gray et al.   GENETICS

Tree of Life Reveals Clock-Like Speciation and Diversification

(2015) S. Blair Hedges et al.   MOLECULAR BIOLOGY AND EVOLUTION

KEGG as a reference resource for gene and protein annotation

(2015) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Greenlandic Inuit show genetic signatures of diet and climate adaptation

(2015) M. Fumagalli et al.   SCIENCE

Dissecting the Genetic Basis of a Complex cis-Regulatory Adaptation

(2015) Santiago Naranjo et al.   PLoS Genetics

The genetic architecture of gene expression levels in wild baboons

(2015) Jenny Tung et al.   eLife

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

ngsTools: methods for population genetics analyses from next-generation sequencing data

(2014) Matteo Fumagalli et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

ANGSD: Analysis of Next Generation Sequencing Data

(2014) Thorfinn Sand Korneliussen et al.   BMC BIOINFORMATICS

Parallel Geographic Variation in Drosophila melanogaster

(2014) Josie A. Reinhardt et al.   GENETICS

Tempo and mode of regulatory evolution in Drosophila

(2014) J. D. Coolon et al.   GENOME RESEARCH

Sources of bias in measures of allele-specific expression derived from RNA-seq data aligned to a single reference genome

(2013) Kraig R Stevenson et al.   BMC GENOMICS

Testing for Associations between Loci and Environmental Gradients Using Latent Factor Mixed Models

(2013) Eric Frichot et al.   MOLECULAR BIOLOGY AND EVOLUTION

Unlocking the vault: next-generation museum population genomics

(2013) Ke Bi et al.   MOLECULAR ECOLOGY

De novotranscriptomic analyses for non-model organisms: an evaluation of methods across a multi-species data set

(2013) Sonal Singhal   Molecular Ecology Resources

A Reassessment of Bergmann's Rule in Modern Humans

(2013) Frederick Foster et al.   PLoS One

Adaptive Evolution of Multiple Traits Through Multiple Mutations at a Single Gene

(2013) C. R. Linnen et al.   SCIENCE

Population genomics of rapid adaptation by soft selective sweeps

(2013) Philipp W. Messer et al.   TRENDS IN ECOLOGY & EVOLUTION

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

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Serum Adiponectin in Relation to Race–Ethnicity and Vascular Risk Factors in the Northern Manhattan Study

(2012) Hannah Gardener et al.   Metabolic Syndrome and Related Disorders

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

SNP Calling, Genotype Calling, and Sample Allele Frequency Estimation from New-Generation Sequencing Data

(2012) Rasmus Nielsen et al.   PLoS One

An encyclopedia of mouse DNA elements (Mouse ENCODE)

(2012) et al.   GENOME BIOLOGY

Genetic Dissection of the Functions of the Melanocortin-3 Receptor, a Seven-transmembrane G-protein-coupled Receptor, Suggests Roles for Central and Peripheral Receptors in Energy Homeostasis

(2011) Karima Begriche et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Population genomics and local adaptation in wild isolates of a model microbial eukaryote

(2011) C. E. Ellison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Map of Local Adaptation in Arabidopsis thaliana

(2011) A. Fournier-Level et al.   SCIENCE

Adaptation to Climate Across the Arabidopsis thaliana Genome

(2011) A. M. Hancock et al.   SCIENCE

RNCEP: global weather and climate data at your fingertips

(2011) Michael U. Kemp et al.   Methods in Ecology and Evolution

Adaptations to Climate-Mediated Selective Pressures in Humans

(2011) Angela M. Hancock et al.   PLoS Genetics

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Genomic Differentiation Between Temperate and Tropical Australian Populations of Drosophila melanogaster

(2010) B. Kolaczkowski et al.   GENETICS

Using Environmental Correlations to Identify Loci Underlying Local Adaptation

(2010) G. Coop et al.   GENETICS

Caveolae at a glance

(2010) M. Bastiani et al.   JOURNAL OF CELL SCIENCE

Analyzing complex traits with congenic strains

(2010) Haifeng Shao et al.   MAMMALIAN GENOME

Population Genetic Analysis of the Uncoupling Proteins Supports a Role for UCP3 in Human Cold Resistance

(2010) A. M. Hancock et al.   MOLECULAR BIOLOGY AND EVOLUTION

Key considerations for measuring allelic expression on a genomic scale using high-throughput sequencing

(2010) PIERRE FONTANILLAS et al.   MOLECULAR ECOLOGY

Adaptation – not by sweeps alone

(2010) Jonathan K. Pritchard et al.   NATURE REVIEWS GENETICS

Adaptations to new environments in humans: the role of subtle allele frequency shifts

(2010) A. M. Hancock et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Sex and Ethnic Differences in 47 Candidate Proteomic Markers of Cardiovascular Disease: The Mayo Clinic Proteomic Markers of Arteriosclerosis Study

(2010) Charles X. Kim et al.   PLoS One

Low Levels of Physical Activity Increase Metabolic Responsiveness to Cold in a Rat (Rattus fuscipes)

(2010) Frank Seebacher et al.   PLoS One

Genetic Evidence for High-Altitude Adaptation in Tibet

(2010) T. S. Simonson et al.   SCIENCE

Sequencing of 50 Human Exomes Reveals Adaptation to High Altitude

(2010) X. Yi et al.   SCIENCE

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Signals of recent positive selection in a worldwide sample of human populations

(2009) J. K. Pickrell et al.   GENOME RESEARCH

fdrtool: a versatile R package for estimating local and tail area-based false discovery rates

(2008) K. Strimmer   BIOINFORMATICS

Genomic Analysis of Adaptive Differentiation in Drosophila melanogaster

(2008) T. L. Turner et al.   GENETICS

The Melanocortin-3 Receptor Is Required for Entrainment to Meal Intake

(2008) G. M. Sutton et al.   JOURNAL OF NEUROSCIENCE

High-throughput Screening of Mouse Knockout Lines Identifies True Lean and Obese Phenotypes

(2008) Robert Brommage et al.   Obesity

Adaptations to Climate in Candidate Genes for Common Metabolic Disorders

(2008) Angela M. Hancock et al.   PLoS Genetics