Differences in enhancer activity in mouse and zebrafish reporter assays are often associated with changes in gene expression

An ancient genomic regulatory block conserved across bilaterians and its dismantling in tetrapods by retrogene replacement

(2012) I. Maeso et al.   GENOME RESEARCH

Extensive conservation of ancient microsynteny across metazoans due to cis-regulatory constraints

(2012) M. Irimia et al.   GENOME RESEARCH

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

(2012) A. Goncalves et al.   GENOME RESEARCH

Identification and Analysis of Conserved cis-Regulatory Regions of the MEIS1 Gene

(2012) José Luis Royo et al.   PLoS One

Mouse Transgenesis Identifies Conserved Functional Enhancers and cis-Regulatory Motif in the Vertebrate LIM Homeobox Gene Lhx2 Locus

(2011) Alison P. Lee et al.   PLoS One

Dissecting the Transcriptional Regulatory Properties of Human Chromosome 16 Highly Conserved Non-Coding Regions

(2011) José Luis Royo et al.   PLoS One

Two types of cis-trans compensation in the evolution of transcriptional regulation

(2011) K. R. Takahasi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transphyletic conservation of developmental regulatory state in animal evolution

(2011) J. L. Royo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A High-Resolution Anatomical Atlas of the Transcriptome in the Mouse Embryo

(2011) Graciana Diez-Roux et al.   PLOS BIOLOGY

Cis-regulatory characterization of sequence conservation surrounding the Hox4 genes

(2010) Beena Punnamoottil et al.   DEVELOPMENTAL BIOLOGY

Genome-wide discovery of human heart enhancers

(2010) L. Narlikar et al.   GENOME RESEARCH

Natural selection on cis and trans regulation in yeasts

(2010) J. J. Emerson et al.   GENOME RESEARCH

An 8q24 gene desert variant associated with prostate cancer risk confers differential in vivo activity to a MYC enhancer

(2010) N. F. Wasserman et al.   GENOME RESEARCH

Efficient discovery of ASCL1 regulatory sequences through transgene pooling

(2010) David M. McGaughey et al.   GENOMICS

Multiple enhancers located in a 1-Mb region upstream of POU3F4 promote expression during inner ear development and may be required for hearing

(2010) Silvia Naranjo et al.   HUMAN GENETICS

Cooperative Action of Multiple cis-Acting Elements Is Required for N-myc Expression in Branchial Arches: Specific Contribution of GATA3

(2010) E. Potvin et al.   MOLECULAR AND CELLULAR BIOLOGY

Ancient Vertebrate Conserved Noncoding Elements Have Been Evolving Rapidly in Teleost Fishes

(2010) A. P. Lee et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Importance of Being Cis: Evolution of Orthologous Fish and Mammalian Enhancer Activity

(2010) Deborah I. Ritter et al.   MOLECULAR BIOLOGY AND EVOLUTION

The mouse Gene Expression Database (GXD): 2011 update

(2010) J. H. Finger et al.   NUCLEIC ACIDS RESEARCH

ZFIN: enhancements and updates to the zebrafish model organism database

(2010) Y. Bradford et al.   NUCLEIC ACIDS RESEARCH

Cis-regulation and chromosomal rearrangement of the fgf8 locus after the teleost/tetrapod split

(2009) Anna Z Komisarczuk et al.   DEVELOPMENTAL BIOLOGY

Zebrafish enhancer detection (ZED) vector: A new tool to facilitate transgenesis and the functional analysis ofcis-regulatory regions in zebrafish

(2009) José Bessa et al.   DEVELOPMENTAL DYNAMICS

Functional autonomy of distant-acting human enhancers

(2009) Axel Visel et al.   GENOMICS

Roles of Trans and Cis Variation in Yeast Intraspecies Evolution of Gene Expression

(2009) Huang-Mo Sung et al.   MOLECULAR BIOLOGY AND EVOLUTION

Regulatory divergence of the duplicated chromosomal loci sox11a/b by subpartitioning and sequence evolution of enhancers in zebrafish

(2009) Pavla Navratilova et al.   MOLECULAR GENETICS AND GENOMICS

ChIP-seq accurately predicts tissue-specific activity of enhancers

(2009) Axel Visel et al.   NATURE

EMAGE mouse embryo spatial gene expression database: 2010 update

(2009) Lorna Richardson et al.   NUCLEIC ACIDS RESEARCH

Long-range gene regulation links genomic type 2 diabetes and obesity risk regions to HHEX, SOX4, and IRX3

(2009) A. Ragvin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Yeast Hybrid Provides Insight into the Evolution of Gene Expression Regulation

(2009) I. Tirosh et al.   SCIENCE

Synorth: exploring the evolution of synteny and long-range regulatory interactions in vertebrate genomes

(2009) Xianjun Dong et al.   GENOME BIOLOGY

Transcriptional features of genomic regulatory blocks

(2009) Altuna Akalin et al.   GENOME BIOLOGY

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

(2008) Sean B. Carroll   CELL

Functional resolution of duplicated hoxb5 genes in teleosts

(2008) O. Jarinova et al.   DEVELOPMENT

Systematic human/zebrafish comparative identification of cis-regulatory activity around vertebrate developmental transcription factor genes

(2008) Pavla Navratilova et al.   DEVELOPMENTAL BIOLOGY

Regulatory changes underlying expression differences within and between Drosophila species

(2008) Patricia J Wittkopp et al.   NATURE GENETICS

Subfunctionalization of Duplicated Zebrafish pax6 Genes by cis-Regulatory Divergence

(2008) Dirk A. Kleinjan et al.   PLoS Genetics

Species-Specific Transcription in Mice Carrying Human Chromosome 21

(2008) M. D. Wilson et al.   SCIENCE

Identification of Neural Crest and Glial Enhancers at the Mouse Sox10 Locus through Transgenesis in Zebrafish

(2008) Anthony Antonellis et al.   PLoS Genetics

Conserved non-coding sequences and transcriptional regulation

(2007) Uwe Strähle et al.   BRAIN RESEARCH BULLETIN