Insights into the Transcriptional Architecture of Behavioral Plasticity in the Honey Bee Apis mellifera

Finding the missing honey bee genes: lessons learned from a genome upgrade

(2014) Christine G Elsik et al.   BMC GENOMICS

Diversity and dynamics of the Drosophila transcriptome

(2014) James B. Brown et al.   NATURE

Two independent transcription initiation codes overlap on vertebrate core promoters

(2014) Vanja Haberle et al.   NATURE

A promoter-level mammalian expression atlas

(2014)   NATURE

Comparative analysis of regulatory information and circuits across distant species

(2014) Alan P. Boyle et al.   NATURE

MyoD Is a Tumor Suppressor Gene in Medulloblastoma

(2013) J. Dey et al.   CANCER RESEARCH

Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis

(2013) Chirag Nepal et al.   GENOME RESEARCH

Activity-dependent gene expression in honey bee mushroom bodies in response to orientation flight

(2013) C. C. Lutz et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Regional differences in gene expression and promoter usage in aged human brains

(2013) Luba M. Pardo et al.   NEUROBIOLOGY OF AGING

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

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Genetics of Reproduction and Regulation of Honeybee (Apis melliferaL.) Social Behavior

(2012) Robert E. Page et al.   Annual Review of Genetics

Understanding the Relationship Between Brain Gene Expression and Social Behavior: Lessons from the Honey Bee

(2012) Amro Zayed et al.   Annual Review of Genetics

RSeQC: quality control of RNA-seq experiments

(2012) Liguo Wang et al.   BIOINFORMATICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Genomic approaches towards finding cis-regulatory modules in animals

(2012) Ross C. Hardison et al.   NATURE REVIEWS GENETICS

FlyBase: improvements to the bibliography

(2012) Steven J. Marygold et al.   NUCLEIC ACIDS RESEARCH

HOCOMOCO: a comprehensive collection of human transcription factor binding sites models

(2012) Ivan V. Kulakovskiy et al.   NUCLEIC ACIDS RESEARCH

Impact of experience-dependent and -independent factors on gene expression in songbird brain

(2012) J. Drnevich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

New meta-analysis tools reveal common transcriptional regulatory basis for multiple determinants of behavior

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

Transcriptional regulation of brain gene expression in response to a territorial intrusion

(2012) Y. O. Sanogo et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Transcription Factor Ultraspiracle Influences Honey Bee Social Behavior and Behavior-Related Gene Expression

(2012) Seth A. Ament et al.   PLoS Genetics

Functional analysis of transcription factor binding sites in human promoters

(2012) Troy W Whitfield et al.   GENOME BIOLOGY

Transcriptional response to foraging experience in the honey bee mushroom bodies

(2011) Claudia C. Lutz et al.   Developmental Neurobiology

Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development

(2011) Sharmistha Pal et al.   GENOME RESEARCH

Mechanisms of stable lipid loss in a social insect

(2011) S. A. Ament et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Neurogenomic signatures of spatiotemporal memories in time-trained forager honey bees

(2011) N. L. Naeger et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Global identification of transcription start sites in the genome of Apis mellifera using 5′LongSAGE

(2011) Huajun Zheng et al.   JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION

Genetic Approaches to Investigate the Role of CREB in Neuronal Plasticity and Memory

(2011) Angel Barco et al.   MOLECULAR NEUROBIOLOGY

Behavior-specific changes in transcriptional modules lead to distinct and predictable neurogenomic states

(2011) S. Chandrasekaran et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genes, hormones, and circuits: An integrative approach to study the evolution of social behavior

(2010) Lauren A. O’Connell et al.   FRONTIERS IN NEUROENDOCRINOLOGY

Genome-wide analysis of promoter architecture in Drosophila melanogaster

(2010) R. A. Hoskins et al.   GENOME RESEARCH

Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan

(2010) Charles Plessy et al.   NATURE METHODS

CREB's control of intrinsic and synaptic plasticity: implications for CREB-dependent memory models

(2010) Eva Benito et al.   TRENDS IN NEUROSCIENCES

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

(2010) Mark D Robinson et al.   GENOME BIOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

A Nurr1/CoREST Pathway in Microglia and Astrocytes Protects Dopaminergic Neurons from Inflammation-Induced Death

(2009) Kaoru Saijo et al.   CELL

Transcriptional activities of the Pax6 gene eyeless regulate tissue specificity of ectopic eye formation in Drosophila

(2009) Bonnie M. Weasner et al.   DEVELOPMENTAL BIOLOGY

Regulation of brain gene expression in honey bees by brood pheromone

(2009) C. Alaux et al.   GENES BRAIN AND BEHAVIOR

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

A systems biology approach to understanding cis-regulatory module function

(2009) Danuta M. Jeziorska et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Interaction of proteins involved in ecdysone and juvenile hormone signal transduction

(2008) Kavita Bitra et al.   ARCHIVES OF INSECT BIOCHEMISTRY AND PHYSIOLOGY

Deep cap analysis gene expression (CAGE): genome-wide identification of promoters, quantification of their expression, and network inference

(2008) Michiel de Hoon et al.   BIOTECHNIQUES

The Clockwork Orange Drosophila Protein Functions as Both an Activator and a Repressor of Clock Gene Expression

(2008) Benjamin Richier et al.   JOURNAL OF BIOLOGICAL RHYTHMS

Insulin signaling is involved in the regulation of worker division of labor in honey bee colonies

(2008) S. A. Ament et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The functional consequences of alternative promoter use in mammalian genomes

(2008) Ramana V. Davuluri et al.   TRENDS IN GENETICS