Physiological and genomic evidence that selection on the transcription factor Epas1 has altered cardiovascular function in high-altitude deer mice

Human Genetic Adaptation to High Altitude: Evidence from the Andes

(2019) Colleen G. Julian et al.   Genes

UNVEILing connections between genotype, phenotype, and fitness in natural populations

(2019) Thomas C Nelson et al.   MOLECULAR ECOLOGY

Effects of chronic hypoxia on diaphragm function in deer mice native to high altitude

(2018) N. J. Dawson et al.   Acta Physiologica

Effects of hypoxia at different life stages on locomotory muscle phenotype in deer mice native to high altitudes

(2018) Kirsten E. Nikel et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY B-BIOCHEMISTRY & MOLECULAR BIOLOGY

The role of hypoxia-inducible factor-2 alpha in angiogenesis

(2018) Christina Befani et al.   JOURNAL OF CELLULAR PHYSIOLOGY

PHD2 inactivation in Type I cells drives HIF-2α dependent multi-lineage hyperplasia and the formation of paraganglioma-like carotid bodies

(2018) James W. Fielding et al.   JOURNAL OF PHYSIOLOGY-LONDON

Circulatory mechanisms underlying adaptive increases in thermogenic capacity in high-altitude deer mice

(2017) Kevin B. Tate et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Evolved changes in the intracellular distribution and physiology of muscle mitochondria in high-altitude native deer mice

(2017) Sajeni Mahalingam et al.   JOURNAL OF PHYSIOLOGY-LONDON

Population transcriptomes reveal synergistic responses of DNA polymorphism and RNA expression to extreme environments on the Qinghai-Tibetan Plateau in a predatory bird

(2017) Shengkai Pan et al.   MOLECULAR ECOLOGY

Ventilatory acclimatization to hypoxia in mice: Methodological considerations

(2017) Catherine M. Ivy et al.   RESPIRATORY PHYSIOLOGY & NEUROBIOLOGY

Transcriptomic plasticity in brown adipose tissue contributes to an enhanced capacity for nonshivering thermogenesis in deer mice

(2016) Jonathan P. Velotta et al.   MOLECULAR ECOLOGY

Evaluation of TagSeq, a reliable low-cost alternative for RNAseq

(2016) Brian K. Lohman et al.   Molecular Ecology Resources

HIF2α–arginase axis is essential for the development of pulmonary hypertension

(2016) Andrew S. Cowburn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genetic approaches in comparative and evolutionary physiology

(2015) Jay F. Storz et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

High-altitude ancestry and hypoxia acclimation have distinct effects on exercise capacity and muscle phenotype in deer mice

(2015) Mikaela A. Lui et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

Atrial natriuretic peptide in cardiovascular biology and disease (NPPA)

(2015) Wei Song et al.   GENE

Germline mutation rates and the long-term phenotypic effects of mutation accumulation in wild-type laboratory mice and mutator mice

(2015) Arikuni Uchimura et al.   GENOME RESEARCH

Regulation of ventilatory sensitivity and carotid body proliferation in hypoxia by the PHD2/HIF-2 pathway

(2015) Emma J. Hodson et al.   JOURNAL OF PHYSIOLOGY-LONDON

Adaptive Modifications of Muscle Phenotype in High-Altitude Deer Mice Are Associated with Evolved Changes in Gene Regulation

(2015) Graham R. Scott et al.   MOLECULAR BIOLOGY AND EVOLUTION

Intraspecific Polymorphism, Interspecific Divergence, and the Origins of Function-Altering Mutations in Deer Mouse Hemoglobin

(2015) Chandrasekhar Natarajan et al.   MOLECULAR BIOLOGY AND EVOLUTION

Humans In Hypoxia: A Conspiracy Of Maladaptation?!

(2015) Jerome A. Dempsey et al.   PHYSIOLOGY

European sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation

(2014) Mbaye Tine et al.   Nature Communications

Hypoxia Adaptations in the Grey Wolf (Canis lupus chanco) from Qinghai-Tibet Plateau

(2014) Wenping Zhang et al.   PLoS Genetics

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Transcriptional regulation by hypoxia inducible factors

(2013) Veronica L. Dengler et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

FUNCTIONAL GENOMICS OF ADAPTATION TO HYPOXIC COLD-STRESS IN HIGH-ALTITUDE DEER MICE: TRANSCRIPTOMIC PLASTICITY AND THERMOGENIC PERFORMANCE

(2013) Zachary A. Cheviron et al.   EVOLUTION

Tibetans living at sea level have a hyporesponsive hypoxia-inducible factor system and blunted physiological responses to hypoxia

(2013) Nayia Petousi et al.   JOURNAL OF APPLIED PHYSIOLOGY

hzar: hybrid zone analysis using an R software package

(2013) Elizabeth P. Derryberry et al.   Molecular Ecology Resources

Ceruloplasmin alters intracellular iron regulated proteins and pathways: Ferritin, transferrin receptor, glutamate and hypoxia-inducible factor-1α

(2012) J. Harned et al.   EXPERIMENTAL EYE RESEARCH

Contributions of phenotypic plasticity to differences in thermogenic performance between highland and lowland deer mice

(2012) Z. A. Cheviron et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

(2012) Davis J. McCarthy et al.   NUCLEIC ACIDS RESEARCH

Regulatory changes contribute to the adaptive enhancement of thermogenic capacity in high-altitude deer mice

(2012) Z. A. Cheviron et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Altitudinal Variation at Duplicated β-Globin Genes in Deer Mice: Effects of Selection, Recombination, and Gene Conversion

(2011) Jay F. Storz et al.   GENETICS

MSMS: a coalescent simulation program including recombination, demographic structure and selection at a single locus

(2010) Gregory Ewing et al.   BIOINFORMATICS

Deriving the consequences of genomic variants with the Ensembl API and SNP Effect Predictor

(2010) William McLaren et al.   BIOINFORMATICS

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Genetic differences in hemoglobin function between highland and lowland deer mice

(2010) J. F. Storz et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Phenotypic plasticity and genetic adaptation to high-altitude hypoxia in vertebrates

(2010) J. F. Storz et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Genome-wide identification of hypoxia-inducible factor binding sites and target genes by a probabilistic model integrating transcription-profiling data and in silico binding site prediction

(2010) Amaya Ortiz-Barahona et al.   NUCLEIC ACIDS RESEARCH

Natural selection on EPAS1 (HIF2 ) associated with low hemoglobin concentration in Tibetan highlanders

(2010) C. M. Beall et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast model-based estimation of ancestry in unrelated individuals

(2009) D. H. Alexander et al.   GENOME RESEARCH

The Relationships of Major Lineages within Peromyscine Rodents: A Molecular Phylogenetic Hypothesis and Systematic Reappraisal

(2009) Jacqueline R. Miller et al.   JOURNAL OF MAMMALOGY

Hypoxia inducible factor (HIF)-2α is required for the development of the catecholaminergic phenotype of sympathoadrenal cells

(2009) Stephen T. Brown et al.   JOURNAL OF NEUROCHEMISTRY

Is Genetic Evolution Predictable?

(2009) D. L. Stern et al.   SCIENCE

Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data

(2009) Ryan N. Gutenkunst et al.   PLoS Genetics

Evo-Devo and an Expanding Evolutionary Synthesis: A Genetic Theory of Morphological Evolution

(2008) Sean B. Carroll   CELL

RESURRECTING THE ROLE OF TRANSCRIPTION FACTOR CHANGE IN DEVELOPMENTAL EVOLUTION

(2008) Vincent J. Lynch et al.   EVOLUTION

Genetic variation in the KCNMA1 potassium channel α subunit as risk factor for severe essential hypertension and myocardial infarction

(2008) Marta Tomás et al.   JOURNAL OF HYPERTENSION

The gene regulatory logic of transcription factor evolution

(2008) Günter P. Wagner et al.   TRENDS IN ECOLOGY & EVOLUTION