cis-Regulatory changes in locomotor genes are associated with the evolution of burrowing behavior

Expanding evolutionary neuroscience: insights from comparing variation in behavior

(2021) Nicholas Jourjine et al.   NEURON

Genome-enabled discovery of evolutionary divergence in brains and behavior

(2021) Chinar Patil et al.   Scientific Reports

Cis-regulatory variants affect gene expression dynamics in yeast

(2021) Ching-Hua Shih et al.   eLife

Behavior-related gene regulatory networks: A new level of organization in the brain

(2020) Saurabh Sinha et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Predominance of cis-regulatory changes in parallel expression divergence of sticklebacks

(2019) Jukka-Pekka Verta et al.   eLife

Transcriptional regulatory divergence underpinning species-specific learned vocalization in songbirds

(2019) Hongdi Wang et al.   PLOS BIOLOGY

Comparative analysis of squamate brains unveils multi-level variation in cerebellar architecture associated with locomotor specialization

(2019) Simone Macrì et al.   Nature Communications

The evolution of nesting behaviour in Peromyscus mice

(2018) Caitlin L. Lewarch et al.   ANIMAL BEHAVIOUR

Assessing the Genetic Landscape of Animal Behavior

(2018) Ryan A. York   GENETICS

Different Neuronal Activity Patterns Induce Different Gene Expression Programs

(2018) Kelsey M. Tyssowski et al.   NEURON

MUMmer4: A fast and versatile genome alignment system

(2018) Guillaume Marçais et al.   PLoS Computational Biology

Assessing the Genetic Landscape of Animal Behavior

(2018) Ryan A. York   GENETICS

Activity-Regulated Transcription: Bridging the Gap between Neural Activity and Behavior

(2018) Ee-Lynn Yap et al.   NEURON

Behavior-dependent cis regulation reveals genes and pathways associated with bower building in cichlid fishes

(2018) Ryan A. York et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single-cell analysis of experience-dependent transcriptomic states in the mouse visual cortex

(2017) Sinisa Hrvatin et al.   NATURE NEUROSCIENCE

Control of species-dependent cortico-motoneuronal connections underlying manual dexterity

(2017) Zirong Gu et al.   SCIENCE

Peromyscus burrowing: A model system for behavioral evolution

(2017) Caroline K. Hu et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Gene regulation and speciation in house mice

(2016) Katya L. Mack et al.   GENOME RESEARCH

Natural courtship song variation caused by an intronic retroelement in an ion channel gene

(2016) Yun Ding et al.   NATURE

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements

(2016) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

Analyses of allele-specific gene expression in highly divergent mouse crosses identifies pervasive allelic imbalance

(2015) James J Crowley et al.   NATURE GENETICS

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Genomic signatures of evolutionary transitions from solitary to group living

(2015) K. M. Kapheim et al.   SCIENCE

Peromyscus mice as a model for studying natural variation

(2015) Nicole L Bedford et al.   eLife

Genes associated with ant social behavior show distinct transcriptional and evolutionary patterns

(2015) Alexander S Mikheyev et al.   eLife

Quantitative and functional interrogation of parent-of-origin allelic expression biases in the brain

(2015) Julio D Perez et al.   eLife

Discrete genetic modules are responsible for complex burrow evolution in Peromyscus mice

(2013) Jesse N. Weber et al.   NATURE

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Extensive compensatory cis-trans regulation in the evolution of mouse gene expression

(2012) A. Goncalves et al.   GENOME RESEARCH

Catecholamine receptor polymorphisms affect decision-making in C. elegans

(2011) Andres Bendesky et al.   NATURE

Systematic Detection of Polygenic cis-Regulatory Evolution

(2011) Hunter B. Fraser et al.   PLoS Genetics

Regulatory divergence in Drosophila revealed by mRNA-seq

(2010) C. J. McManus et al.   GENOME RESEARCH

The evolution of burrowing behaviour in deer mice (genus Peromyscus)

(2009) Jesse N. Weber et al.   ANIMAL BEHAVIOUR

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The mammalian phenotype ontology: enabling robust annotation and comparative analysis

(2009) Cynthia L. Smith et al.   Wiley Interdisciplinary Reviews-Systems Biology and Medicine