Mapping active promoters by ChIP-seq profiling of H3K4me3 in cichlid fish - a first step to uncover cis-regulatory elements in ecological model teleosts

The Evolutionary Genomics of Cichlid Fishes: Explosive Speciation and Adaptation in the Postgenomic Era

(2014) Frederico Henning et al.   Annual Review of Genomics and Human Genetics

Comparative epigenomics in distantly related teleost species identifies conserved cis-regulatory nodes active during the vertebrate phylotypic period

(2014) J. J. Tena et al.   GENOME RESEARCH

The genomic substrate for adaptive radiation in African cichlid fish

(2014) David Brawand et al.   NATURE

Heterochrony and developmental timing mechanisms: Changing ontogenies in evolution

(2014) Anna L. Keyte et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Wnt/β-Catenin Signaling Defines Organizing Centers that Orchestrate Growth and Differentiation of the Regenerating Zebrafish Caudal Fin

(2014) Daniel Wehner et al.   Cell Reports

Revisiting de Beer’s textbook example of heterochrony and jaw elongation in fish: calmodulin expression reflects heterochronic growth, and underlies morphological innovation in the jaws of belonoid fishes

(2014) Helen M Gunter et al.   EvoDevo

Transcriptomics of morphological color change in polychromatic Midas cichlids

(2013) Frederico Henning et al.   BMC GENOMICS

Cooperativity and Rapid Evolution of Cobound Transcription Factors in Closely Related Mammals

(2013) Klara Stefflova et al.   CELL

Notch regulates blastema proliferation and prevents differentiation during adult zebrafish fin regeneration

(2013) J. Munch et al.   DEVELOPMENT

Transcriptional components of anteroposterior positional information during zebrafish fin regeneration

(2013) G. Nachtrab et al.   DEVELOPMENT

Hox genes regulation in vertebrates

(2013) Natalia Soshnikova   DEVELOPMENTAL DYNAMICS

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

(2013) Chirag Nepal et al.   GENOME RESEARCH

Transcription Start Site Evolution in Drosophila

(2013) Bradley J. Main et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomic architecture of ecologically divergent body shape in a pair of sympatric crater lake cichlid fishes

(2013) Paolo Franchini et al.   MOLECULAR ECOLOGY

Shaping development through mechanical strain: the transcriptional basis of diet-induced phenotypic plasticity in a cichlid fish

(2013) Helen M. Gunter et al.   MOLECULAR ECOLOGY

Topology of mammalian developmental enhancers and their regulatory landscapes

(2013) Wouter de Laat et al.   NATURE

Fine Tuning of Craniofacial Morphology by Distant-Acting Enhancers

(2013) C. Attanasio et al.   SCIENCE

Colour variation in cichlid fish: Developmental mechanisms, selective pressures and evolutionary consequences

(2013) Martine E. Maan et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

A Hybrid Genetic Linkage Map of Two Ecologically and Morphologically Divergent Midas Cichlid Fishes ( Amphilophus spp.) Obtained by Massively Parallel DNA Sequencing (ddRADSeq)

(2013) Hans Recknagel et al.   G3-Genes Genomes Genetics

Social Control of the Brain

(2012) Russell D. Fernald   Annual Review of Neuroscience

Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis

(2012) O. Bogdanovic et al.   GENOME RESEARCH

Use of alternative promoters may hide genetic effects on phenotypic traits

(2012) Edward A Ruiz-Narváez   JOURNAL OF HUMAN GENETICS

Intragenic Enhancers Act as Alternative Promoters

(2012) Monika S. Kowalczyk et al.   MOLECULAR CELL

AFLP genome scans suggest divergent selection on colour patterning in allopatric colour morphs of a cichlid fish

(2012) KARIN MATTERSDORFER et al.   MOLECULAR ECOLOGY

The long-range interaction landscape of gene promoters

(2012) Amartya Sanyal et al.   NATURE

ChIP–seq and beyond: new and improved methodologies to detect and characterize protein–DNA interactions

(2012) Terrence S. Furey   NATURE REVIEWS GENETICS

Eggspot Number and Sexual Selection in the Cichlid Fish Astatotilapia burtoni

(2012) Frederico Henning et al.   PLoS One

Natural variation of H3K27me3 distribution between two Arabidopsis accessions and its association with flanking transposable elements

(2012) Xue Dong et al.   GENOME BIOLOGY

Retinoic acid signaling controls the formation, proliferation and survival of the blastema during adult zebrafish fin regeneration

(2011) N. Blum et al.   DEVELOPMENT

Identification of cis regulatory features in the embryonic zebrafish genome through large-scale profiling of H3K4me1 and H3K4me3 binding sites

(2011) Aaron W. Aday et al.   DEVELOPMENTAL BIOLOGY

Bone Regenerates via Dedifferentiation of Osteoblasts in the Zebrafish Fin

(2011) Franziska Knopf et al.   DEVELOPMENTAL CELL

Fate Restriction in the Growing and Regenerating Zebrafish Fin

(2011) Shu Tu et al.   DEVELOPMENTAL CELL

Comparative Transcriptomics of Eastern African Cichlid Fishes Shows Signs of Positive Selection and a Large Contribution of Untranslated Regions to Genetic Diversity

(2011) Laura Baldo et al.   Genome Biology and Evolution

Genomics of adaptation and speciation in cichlid fishes: recent advances and analyses in African and Neotropical lineages

(2011) S. Fan et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A Sensory Bias Has Triggered the Evolution of Egg-Spots in Cichlid Fishes

(2011) Bernd Egger et al.   PLoS One

Three Periods of Regulatory Innovation During Vertebrate Evolution

(2011) C. B. Lowe et al.   SCIENCE

Transcriptional Enhancers in Animal Development and Evolution

(2010) Mike Levine   CURRENT BIOLOGY

A ChIP-seq defined genome-wide map of vitamin D receptor binding: Associations with disease and evolution

(2010) S. V. Ramagopalan et al.   GENOME RESEARCH

ChIP-Seq identification of weakly conserved heart enhancers

(2010) Matthew J Blow et al.   NATURE GENETICS

Charting histone modifications and the functional organization of mammalian genomes

(2010) Vicky W. Zhou et al.   NATURE REVIEWS GENETICS

seqMINER: an integrated ChIP-seq data interpretation platform

(2010) Tao Ye et al.   NUCLEIC ACIDS RESEARCH

Developmental regulation and individual differences of neuronal H3K4me3 epigenomes in the prefrontal cortex

(2010) I. Cheung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Five-Vertebrate ChIP-seq Reveals the Evolutionary Dynamics of Transcription Factor Binding

(2010) D. Schmidt et al.   SCIENCE

The root of the East African cichlid radiations

(2009) Julia Schwarzer et al.   BMC EVOLUTIONARY BIOLOGY

Identification of novel genes involved in the development of the sword and gonopodium in swordtail fish

(2009) Nils Offen et al.   DEVELOPMENTAL DYNAMICS

ChIP-seq: Using high-throughput sequencing to discover protein–DNA interactions

(2009) Dominic Schmidt et al.   METHODS

ChIP-seq accurately predicts tissue-specific activity of enhancers

(2009) Axel Visel et al.   NATURE

Highly conserved non-coding elements on either side of SOX9 associated with Pierre Robin sequence

(2009) Sabina Benko et al.   NATURE GENETICS

ChIP–seq: advantages and challenges of a maturing technology

(2009) Peter J. Park   NATURE REVIEWS GENETICS

Epigenetic Temporal Control of Mouse Hox Genes in Vivo

(2009) N. Soshnikova et al.   SCIENCE

Genomic analysis of cichlid fish ‘natural mutants’

(2008) Shigehiro Kuraku et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

A Microsatellite-Based Genetic Linkage Map of the Cichlid Fish, Astatotilapia burtoni (Teleostei): A Comparison of Genomic Architectures Among Rapidly Speciating Cichlids

(2008) M. Sanetra et al.   GENETICS

Speciation through sensory drive in cichlid fish

(2008) Ole Seehausen et al.   NATURE