List of works - José Luis Gómez-Skarmeta

A conserved Shh cis-regulatory module highlights a common developmental origin of unpaired and paired fins.

scientific article published on 19 March 2018

A conserved function of the chromatin ATPase Kismet in the regulation of hedgehog expression

scientific article published on 10 December 2010

A dual requirement for Iroquois genes during Xenopus kidney development

scientific article

A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts.

scientific article published on 15 July 2005

A mobile insulator system to detect and disrupt cis-regulatory landscapes in vertebrates

scientific article published on 25 November 2013

A novel function for the Xslug gene: control of dorsal mesendoderm development by repressing BMP-4.

scientific article published in October 2000

A polymorphic enhancer near GREM1 influences bowel cancer risk through differential CDX2 and TCF7L2 binding

scientific article published on 14 August 2014

A role for insulator elements in the regulation of gene expression response to hypoxia

scientific article

Allelic variation at the 8q23.3 colorectal cancer risk locus functions as a cis-acting regulator of EIF3H.

scientific article

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

scientific article (publication date: April 2012)

An evolutionarily conserved three-dimensional structure in the vertebrate Irx clusters facilitates enhancer sharing and coregulation.

scientific article published in January 2011

Araucan and caupolican, two members of the novel iroquois complex, encode homeoproteins that control proneural and vein-forming genes.

scientific article published in April 1996

Characterization of new otic enhancers of the pou3f4 gene reveal distinct signaling pathway regulation and spatio-temporal patterns.

scientific article

Cis-regulation of achaete and scute: shared enhancer-like elements drive their coexpression in proneural clusters of the imaginal discs.

scientific article published on August 1995

Cis-regulatory landscapes in development and evolution.

scientific article published on 11 November 2016

Coenzyme Q10 and alpha-tocopherol protect against amitriptyline toxicity

scientific article published in March 2009

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

scientific article published on 7 April 2014

Comparative genomics of the Hedgehog loci in chordates and the origins of Shh regulatory novelties

scientific article

Conservative route to genome compaction in a miniature annelid

scientific article published on 16 November 2020

Conserved cross-interactions in Drosophila and Xenopus between Ras/MAPK signaling and the dual-specificity phosphatase MKP3.

scientific article published in March 2005

Conserved developmental expression of Fezf in chordates and Drosophila and the origin of the Zona Limitans Intrathalamica (ZLI) brain organizer

scientific article published on September 2010

Cracking the genome's second code: enhancer detection by combined phylogenetic footprinting and transgenic fish and frog embryos

scientific article published in July 2006

Deep conservation of cis-regulatory elements in metazoans

scientific article

Deletion 1q43-44 in a patient with clinical diagnosis of Warburg-Micro syndrome.

scientific article published on 21 April 2015

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

scientific article

Different turnover of rat fetal and placental ornithine decarboxylases

scientific article published in January 1990

Dioxin receptor and SLUG transcription factors regulate the insulator activity of B1 SINE retrotransposons via an RNA polymerase switch.

scientific article

Dissecting the transcriptional regulatory properties of human chromosome 16 highly conserved non-coding regions

scientific article

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

scientific article published on 16 May 2012

Early evolution of the T-box transcription factor family

scientific article published on 16 September 2013

Embryonic DNA methylation: insights from the genomics era.

scientific article

Engineered Salmonella allows real-time heterologous gene expression monitoring within infected zebrafish embryos.

scientific article published on 8 December 2011

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

scientific article

Formation of posterior cranial placode derivatives requires the Iroquois transcription factor irx4a

scientific article

Genome-wide CTCF distribution in vertebrates defines equivalent sites that aid the identification of disease-associated genes.

scientific article

Genome-wide profiling of p63 DNA-binding sites identifies an element that regulates gene expression during limb development in the 7q21 SHFM1 locus.

scientific article

Half a century of neural prepatterning: the story of a few bristles and many genes.

scientific article

Heartbeat-driven pericardiac fluid forces contribute to epicardium morphogenesis.

scientific article

Hoxd13 contribution to the evolution of vertebrate appendages

scientific article published in December 2012

Identification and analysis of conserved cis-regulatory regions of the MEIS1 gene

scientific article

Identification of the first recurrent PAR1 deletion in Léri-Weill dyschondrosteosis and idiopathic short stature reveals the presence of a novelSHOXenhancer

scientific article published on 01 July 2012

Identification of the vertebrate Iroquois homeobox gene family with overlapping expression during early development of the nervous system

scientific article

Inactivation of ornithine decarboxylase by intermediates of tyrosinase-catalyzed reaction

scientific article published on 01 March 1993

Iroquois genes: genomic organization and function in vertebrate neural development.

scientific article

Long-range regulatory interactions at the 4q25 atrial fibrillation risk locus involve PITX2c and ENPEP.

scientific article published on 17 April 2015

Making reporter gene constructs to analyze cis-regulatory elements.

scientific article published in January 2011

Matricellular protein SPARC/osteonectin expression is regulated by DNA methylation in its core promoter region

scientific article

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

scientific article

New frontiers in the evolution of fin development.

scientific article published on 12 February 2014

New technologies, new findings, and new concepts in the study of vertebrate cis-regulatory sequences

scientific article

Noggin and Noggin-Like Genes Control Dorsoventral Axis Regeneration in Planarians

article

Obesity-associated variants within FTO form long-range functional connections with IRX3

scientific article (publication date: 20 March 2014)

Odd-skipped genes encode repressors that control kidney development.

scientific article published in September 2006

Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants

scientific article

Publisher Correction: Conservative route to genome compaction in a miniature annelid

scientific article published on 25 November 2020

RE-1 silencer of transcription/neural restrictive silencer factor modulates ectodermal patterning during Xenopus development

scientific article published on 01 March 2006

Restless legs syndrome-associated intronic common variant in Meis1 alters enhancer function in the developing telencephalon

scientific journal article

SIRPB1 copy-number polymorphism as candidate quantitative trait locus for impulsive-disinhibited personality.

scientific article published on 23 July 2014

Several cis-regulatory elements control mRNA stability, translation efficiency, and expression pattern of Prrxl1 (paired related homeobox protein-like 1).

scientific article published on 8 November 2013

Silencing of Smed-betacatenin1 generates radial-like hypercephalized planarians.

scientific article published on 20 February 2008

Suppression of Bmp4 signaling by the zinc-finger repressors Osr1 and Osr2 is required for Wnt/β-catenin-mediated lung specification in Xenopus.

scientific article

TEAD and YAP regulate the enhancer network of human embryonic pancreatic progenitors

scientific article published on 27 April 2015

The 14q22.2 colorectal cancer variant rs4444235 shows cis-acting regulation of BMP4

scientific article published on 12 December 2011

The Iroquois family of genes: from body building to neural patterning.

scientific article

The Irx gene family in zebrafish: genomic structure, evolution and initial characterization of irx5b

scientific article published on 3 April 2004

The Osr1 and Osr2 genes act in the pronephric anlage downstream of retinoic acid signaling and upstream of Wnt2b to maintain pectoral fin development

scientific article published on 30 November 2011

The Wnt-activated Xiro1 gene encodes a repressor that is essential for neural development and downregulates Bmp4.

scientific article published in February 2001

The Xenopus Irx genes are essential for neural patterning and define the border between prethalamus and thalamus through mutual antagonism with the anterior repressors Fezf and Arx.

scientific article

The Xiro-repressed gene CoREST is expressed in Xenopus neural territories.

scientific article published in January 2002

The colorectal cancer risk at 18q21 is caused by a novel variant altering SMAD7 expression

scientific article

The developmental epigenomics toolbox: ChIP-seq and MethylCap-seq profiling of early zebrafish embryos.

scientific article published on 23 April 2013

The genome sequencing of an albino Western lowland gorilla reveals inbreeding in the wild

scientific article

The homeoprotein Xiro1 is required for midbrain-hindbrain boundary formation.

scientific article published in April 2002

Transphyletic conservation of developmental regulatory state in animal evolution

scientific article

Understanding the regulatory genome.

scientific article published on January 2009

XTIF2, a Xenopus homologue of the human transcription intermediary factor, is required for a nuclear receptor pathway that also interacts with CBP to suppress Brachyury and XMyoD.

scientific article published on March 2000

Xenopus Xlmo4 is a GATA cofactor during ventral mesoderm formation and regulates Ldb1 availability at the dorsal mesoderm and the neural plate

scientific article published in December 2003

Xenopus brain factor-2 controls mesoderm, forebrain and neural crest development

scientific article published in January 1999

Xiro homeoproteins coordinate cell cycle exit and primary neuron formation by upregulating neuronal-fate repressors and downregulating the cell-cycle inhibitor XGadd45-gamma

scientific article published in November 2002

Xiro, a Xenopus homolog of the Drosophila Iroquois complex genes, controls development at the neural plate

scientific article published on January 1998

Xiro-1 controls mesoderm patterning by repressing bmp-4 expression in the Spemann organizer.

scientific article published in November 2001

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

article

araucan and caupolican provide a link between compartment subdivisions and patterning of sensory organs and veins in the Drosophila wing.

scientific article published in November 1996

iroquois: a prepattern gene that controls the formation of bristles on the thorax of Drosophila.

scientific article published in September 1996

meis1 regulates cyclin D1 and c-myc expression, and controls the proliferation of the multipotent cells in the early developing zebrafish eye.

scientific article published on 23 January 2008

sox21a directs lateral line patterning by modulating FGF signaling

scientific article published on 18 July 2014

yap1b, a divergent Yap/Taz family member, cooperates with yap1 in survival and morphogenesis via common transcriptional targets

scientific article published on 21 June 2019

List of works by José Luis Gómez-Skarmeta

A conserved Shh cis-regulatory module highlights a common developmental origin of unpaired and paired fins.

A conserved function of the chromatin ATPase Kismet in the regulation of hedgehog expression

A dual requirement for Iroquois genes during Xenopus kidney development

A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts.

A mobile insulator system to detect and disrupt cis-regulatory landscapes in vertebrates

A novel function for the Xslug gene: control of dorsal mesendoderm development by repressing BMP-4.

A polymorphic enhancer near GREM1 influences bowel cancer risk through differential CDX2 and TCF7L2 binding

A role for insulator elements in the regulation of gene expression response to hypoxia

Allelic variation at the 8q23.3 colorectal cancer risk locus functions as a cis-acting regulator of EIF3H.

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

An evolutionarily conserved three-dimensional structure in the vertebrate Irx clusters facilitates enhancer sharing and coregulation.

Araucan and caupolican, two members of the novel iroquois complex, encode homeoproteins that control proneural and vein-forming genes.

Characterization of new otic enhancers of the pou3f4 gene reveal distinct signaling pathway regulation and spatio-temporal patterns.

Cis-regulation of achaete and scute: shared enhancer-like elements drive their coexpression in proneural clusters of the imaginal discs.

Cis-regulatory landscapes in development and evolution.

Coenzyme Q10 and alpha-tocopherol protect against amitriptyline toxicity

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

Comparative genomics of the Hedgehog loci in chordates and the origins of Shh regulatory novelties

Conservative route to genome compaction in a miniature annelid

Conserved cross-interactions in Drosophila and Xenopus between Ras/MAPK signaling and the dual-specificity phosphatase MKP3.

Conserved developmental expression of Fezf in chordates and Drosophila and the origin of the Zona Limitans Intrathalamica (ZLI) brain organizer

Cracking the genome's second code: enhancer detection by combined phylogenetic footprinting and transgenic fish and frog embryos

Deep conservation of cis-regulatory elements in metazoans

Deletion 1q43-44 in a patient with clinical diagnosis of Warburg-Micro syndrome.

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

Different turnover of rat fetal and placental ornithine decarboxylases

Dioxin receptor and SLUG transcription factors regulate the insulator activity of B1 SINE retrotransposons via an RNA polymerase switch.

Dissecting the transcriptional regulatory properties of human chromosome 16 highly conserved non-coding regions

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

Early evolution of the T-box transcription factor family

Embryonic DNA methylation: insights from the genomics era.

Engineered Salmonella allows real-time heterologous gene expression monitoring within infected zebrafish embryos.

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

Formation of posterior cranial placode derivatives requires the Iroquois transcription factor irx4a

Genome-wide CTCF distribution in vertebrates defines equivalent sites that aid the identification of disease-associated genes.

Genome-wide profiling of p63 DNA-binding sites identifies an element that regulates gene expression during limb development in the 7q21 SHFM1 locus.

Half a century of neural prepatterning: the story of a few bristles and many genes.

Heartbeat-driven pericardiac fluid forces contribute to epicardium morphogenesis.

Hoxd13 contribution to the evolution of vertebrate appendages

Identification and analysis of conserved cis-regulatory regions of the MEIS1 gene

Identification of the first recurrent PAR1 deletion in Léri-Weill dyschondrosteosis and idiopathic short stature reveals the presence of a novelSHOXenhancer

Identification of the vertebrate Iroquois homeobox gene family with overlapping expression during early development of the nervous system

Inactivation of ornithine decarboxylase by intermediates of tyrosinase-catalyzed reaction

Iroquois genes: genomic organization and function in vertebrate neural development.

Long-range regulatory interactions at the 4q25 atrial fibrillation risk locus involve PITX2c and ENPEP.

Making reporter gene constructs to analyze cis-regulatory elements.

Matricellular protein SPARC/osteonectin expression is regulated by DNA methylation in its core promoter region

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

New frontiers in the evolution of fin development.

New technologies, new findings, and new concepts in the study of vertebrate cis-regulatory sequences

Noggin and Noggin-Like Genes Control Dorsoventral Axis Regeneration in Planarians

Obesity-associated variants within FTO form long-range functional connections with IRX3

Odd-skipped genes encode repressors that control kidney development.

Pancreatic islet enhancer clusters enriched in type 2 diabetes risk-associated variants

Publisher Correction: Conservative route to genome compaction in a miniature annelid

RE-1 silencer of transcription/neural restrictive silencer factor modulates ectodermal patterning during Xenopus development

Restless legs syndrome-associated intronic common variant in Meis1 alters enhancer function in the developing telencephalon

SIRPB1 copy-number polymorphism as candidate quantitative trait locus for impulsive-disinhibited personality.

Several cis-regulatory elements control mRNA stability, translation efficiency, and expression pattern of Prrxl1 (paired related homeobox protein-like 1).

Silencing of Smed-betacatenin1 generates radial-like hypercephalized planarians.

Suppression of Bmp4 signaling by the zinc-finger repressors Osr1 and Osr2 is required for Wnt/β-catenin-mediated lung specification in Xenopus.

TEAD and YAP regulate the enhancer network of human embryonic pancreatic progenitors

The 14q22.2 colorectal cancer variant rs4444235 shows cis-acting regulation of BMP4

The Iroquois family of genes: from body building to neural patterning.

The Irx gene family in zebrafish: genomic structure, evolution and initial characterization of irx5b

The Osr1 and Osr2 genes act in the pronephric anlage downstream of retinoic acid signaling and upstream of Wnt2b to maintain pectoral fin development

The Wnt-activated Xiro1 gene encodes a repressor that is essential for neural development and downregulates Bmp4.

The Xenopus Irx genes are essential for neural patterning and define the border between prethalamus and thalamus through mutual antagonism with the anterior repressors Fezf and Arx.

The Xiro-repressed gene CoREST is expressed in Xenopus neural territories.

The colorectal cancer risk at 18q21 is caused by a novel variant altering SMAD7 expression

The developmental epigenomics toolbox: ChIP-seq and MethylCap-seq profiling of early zebrafish embryos.

The genome sequencing of an albino Western lowland gorilla reveals inbreeding in the wild

The homeoprotein Xiro1 is required for midbrain-hindbrain boundary formation.

Transphyletic conservation of developmental regulatory state in animal evolution

Understanding the regulatory genome.

XTIF2, a Xenopus homologue of the human transcription intermediary factor, is required for a nuclear receptor pathway that also interacts with CBP to suppress Brachyury and XMyoD.

Xenopus Xlmo4 is a GATA cofactor during ventral mesoderm formation and regulates Ldb1 availability at the dorsal mesoderm and the neural plate

Xenopus brain factor-2 controls mesoderm, forebrain and neural crest development

Xiro homeoproteins coordinate cell cycle exit and primary neuron formation by upregulating neuronal-fate repressors and downregulating the cell-cycle inhibitor XGadd45-gamma