José L Gómez-Skarmeta (1966-2020)

Publications (30)

XB-PERS-2084

Publications By José L Gómez-Skarmeta (1966-2020)

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Active DNA demethylation at enhancers during the vertebrate phylotypic period., Bogdanović O, Smits AH, de la Calle Mustienes E, Tena JJ, Ford E, Williams R, Senanayake U, Schultz MD, Hontelez S, van Kruijsbergen I, Rayon T, Gnerlich F, Carell T, Veenstra GJ, Manzanares M, Sauka-Spengler T, Ecker JR, Vermeulen M, Gómez-Skarmeta JL, Lister R., Nat Genet. April 1, 2016; 48 (4): 417-26.
The conserved barH-like homeobox-2 gene barhl2 acts downstream of orthodentricle-2 and together with iroquois-3 in establishment of the caudal forebrain signaling center induced by Sonic Hedgehog., Juraver-Geslin HA, Gómez-Skarmeta JL, Durand BC., Dev Biol. December 1, 2014; 396 (1): 107-20.
Early evolution of the T-box transcription factor family., Sebé-Pedrós A, Ariza-Cosano A, Weirauch MT, Leininger S, Yang A, Torruella G, Adamski M, Adamska M, Hughes TR, Gómez-Skarmeta JL, Ruiz-Trillo I., Proc Natl Acad Sci U S A. October 1, 2013; 110 (40): 16050-5.
Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis., Bogdanovic O, Fernandez-Miñán A, Tena JJ, de la Calle-Mustienes E, Hidalgo C, van Kruysbergen I, van Heeringen SJ, Veenstra GJ, Gómez-Skarmeta JL., Genome Res. October 1, 2012; 22 (10): 2043-53.
Suppression of Bmp4 signaling by the zinc-finger repressors Osr1 and Osr2 is required for Wnt/β-catenin-mediated lung specification in Xenopus., Rankin SA, Gallas AL, Neto A, Gómez-Skarmeta JL, Zorn AM., Development. August 1, 2012; 139 (16): 3010-20.
Temporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis., Bogdanovic O, Long SW, van Heeringen SJ, Brinkman AB, Gómez-Skarmeta JL, Stunnenberg HG, Jones PL, Veenstra GJ., Genome Res. August 1, 2011; 21 (8): 1313-27.
Noggin and noggin-like genes control dorsoventral axis regeneration in planarians., Molina MD, Neto A, Maeso I, Gómez-Skarmeta JL, Saló E, Cebrià F., Curr Biol. February 22, 2011; 21 (4): 300-5.
A conserved function of the chromatin ATPase Kismet in the regulation of hedgehog expression., Terriente-Félix A, Molnar C, Gómez-Skarmeta JL, de Celis JF., Dev Biol. February 15, 2011; 350 (2): 382-92.
An evolutionarily conserved three-dimensional structure in the vertebrate Irx clusters facilitates enhancer sharing and coregulation., Tena JJ, Alonso ME, de la Calle-Mustienes E, Splinter E, de Laat W, Manzanares M, Gómez-Skarmeta JL., Nat Commun. January 1, 2011; 2 310.
Characterization of new otic enhancers of the pou3f4 gene reveal distinct signaling pathway regulation and spatio-temporal patterns., Robert-Moreno À, Naranjo S, de la Calle-Mustienes E, Gómez-Skarmeta JL, Alsina B., PLoS One. December 31, 2010; 5 (12): e15907.
Multiple enhancers located in a 1-Mb region upstream of POU3F4 promote expression during inner ear development and may be required for hearing., Naranjo S, Voesenek K, de la Calle-Mustienes E, Robert-Moreno A, Kokotas H, Grigoriadou M, Economides J, Van Camp G, Hilgert N, Moreno F, Alsina B, Petersen MB, Kremer H, Gómez-Skarmeta JL., Hum Genet. October 1, 2010; 128 (4): 411-9.
The colorectal cancer risk at 18q21 is caused by a novel variant altering SMAD7 expression., Pittman AM, Naranjo S, Webb E, Broderick P, Lips EH, van Wezel T, Morreau H, Sullivan K, Fielding S, Twiss P, Vijayakrishnan J, Casares F, Qureshi M, Gómez-Skarmeta JL, Houlston RS., Genome Res. June 1, 2009; 19 (6): 987-93.
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., Rodríguez-Seguel E, Alarcón P, Gómez-Skarmeta JL., Dev Biol. May 15, 2009; 329 (2): 258-68.
A dual requirement for Iroquois genes during Xenopus kidney development., Alarcón P, Rodríguez-Seguel E, Fernández-González A, Rubio R, Gómez-Skarmeta JL., Development. October 1, 2008; 135 (19): 3197-207.
Silencing of Smed-betacatenin1 generates radial-like hypercephalized planarians., Iglesias M, Gomez-Skarmeta JL, Saló E, Adell T., Development. April 1, 2008; 135 (7): 1215-21.
Odd-skipped genes encode repressors that control kidney development., Tena JJ, Neto A, de la Calle-Mustienes E, Bras-Pereira C, Casares F, Gómez-Skarmeta JL., Dev Biol. January 15, 2007; 301 (2): 518-31.
Cracking the genome's second code: enhancer detection by combined phylogenetic footprinting and transgenic fish and frog embryos., Allende ML, Manzanares M, Tena JJ, Feijóo CG, Gómez-Skarmeta JL., Methods. July 1, 2006; 39 (3): 212-9.
New technologies, new findings, and new concepts in the study of vertebrate cis-regulatory sequences., Gómez-Skarmeta JL, Lenhard B, Becker TS., Dev Dyn. April 1, 2006; 235 (4): 870-85.
A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts., de la Calle-Mustienes E, Feijóo CG, Manzanares M, Tena JJ, Rodríguez-Seguel E, Letizia A, Allende ML, Gómez-Skarmeta JL., Genome Res. August 1, 2005; 15 (8): 1061-72.
Conserved cross-interactions in Drosophila and Xenopus between Ras/MAPK signaling and the dual-specificity phosphatase MKP3., Gómez AR, López-Varea A, Molnar C, de la Calle-Mustienes E, Ruiz-Gómez M, Gómez-Skarmeta JL, de Celis JF., Dev Dyn. March 1, 2005; 232 (3): 695-708.
Xenopus Xlmo4 is a GATA cofactor during ventral mesoderm formation and regulates Ldb1 availability at the dorsal mesoderm and the neural plate., de la Calle-Mustienes E, Lu Z, Cortés M, Andersen B, Modolell J, Gómez-Skarmeta JL., Dev Biol. December 15, 2003; 264 (2): 564-81.
Xiro homeoproteins coordinate cell cycle exit and primary neuron formation by upregulating neuronal-fate repressors and downregulating the cell-cycle inhibitor XGadd45-gamma., de la Calle-Mustienes E, Glavic A, Modolell J, Gómez-Skarmeta JL., Mech Dev. November 1, 2002; 119 (1): 69-80.
The homeoprotein Xiro1 is required for midbrain-hindbrain boundary formation., Glavic A, Gómez-Skarmeta JL, Mayor R., Development. April 1, 2002; 129 (7): 1609-21.
The Xiro-repressed gene CoREST is expressed in Xenopus neural territories., de la Calle-Mustienes E, Modolell J, Gómez-Skarmeta JL., Mech Dev. January 1, 2002; 110 (1-2): 209-11.
Xiro-1 controls mesoderm patterning by repressing bmp-4 expression in the Spemann organizer., Glavic A, Gómez-Skarmeta JL, Mayor R., Dev Dyn. November 1, 2001; 222 (3): 368-76.
The Iroquois family of genes: from body building to neural patterning., Cavodeassi F, Modolell J, Gómez-Skarmeta JL., Development. August 1, 2001; 128 (15): 2847-55.
A novel function for the Xslug gene: control of dorsal mesendoderm development by repressing BMP-4., Mayor R, Guerrero N, Young RM, Gomez-Skarmeta JL, Cuellar C., Mech Dev. October 1, 2000; 97 (1-2): 47-56.
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., de la Calle-Mustienes E, Gómez-Skarmeta JL., Mech Dev. March 1, 2000; 91 (1-2): 119-29.
Xenopus brain factor-2 controls mesoderm, forebrain and neural crest development., Gómez-Skarmeta JL, de la Calle-Mustienes E, Modolell J, Mayor R., Mech Dev. January 1, 1999; 80 (1): 15-27.
Xiro, a Xenopus homolog of the Drosophila Iroquois complex genes, controls development at the neural plate., Gómez-Skarmeta JL, Glavic A, de la Calle-Mustienes E, Modolell J, Mayor R., EMBO J. January 2, 1998; 17 (1): 181-90.

Active DNA demethylation at enhancers during the vertebrate phylotypic period., Bogdanović O, Smits AH, de la Calle Mustienes E, Tena JJ, Ford E, Williams R, Senanayake U, Schultz MD, Hontelez S, van Kruijsbergen I, Rayon T, Gnerlich F, Carell T, Veenstra GJ, Manzanares M, Sauka-Spengler T, Ecker JR, Vermeulen M, Gómez-Skarmeta JL, Lister R., Nat Genet. April 1, 2016; 48 (4): 417-26.

The conserved barH-like homeobox-2 gene barhl2 acts downstream of orthodentricle-2 and together with iroquois-3 in establishment of the caudal forebrain signaling center induced by Sonic Hedgehog., Juraver-Geslin HA, Gómez-Skarmeta JL, Durand BC., Dev Biol. December 1, 2014; 396 (1): 107-20.

Early evolution of the T-box transcription factor family., Sebé-Pedrós A, Ariza-Cosano A, Weirauch MT, Leininger S, Yang A, Torruella G, Adamski M, Adamska M, Hughes TR, Gómez-Skarmeta JL, Ruiz-Trillo I., Proc Natl Acad Sci U S A. October 1, 2013; 110 (40): 16050-5.

Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis., Bogdanovic O, Fernandez-Miñán A, Tena JJ, de la Calle-Mustienes E, Hidalgo C, van Kruysbergen I, van Heeringen SJ, Veenstra GJ, Gómez-Skarmeta JL., Genome Res. October 1, 2012; 22 (10): 2043-53.

Suppression of Bmp4 signaling by the zinc-finger repressors Osr1 and Osr2 is required for Wnt/β-catenin-mediated lung specification in Xenopus., Rankin SA, Gallas AL, Neto A, Gómez-Skarmeta JL, Zorn AM., Development. August 1, 2012; 139 (16): 3010-20.

Temporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis., Bogdanovic O, Long SW, van Heeringen SJ, Brinkman AB, Gómez-Skarmeta JL, Stunnenberg HG, Jones PL, Veenstra GJ., Genome Res. August 1, 2011; 21 (8): 1313-27.

Noggin and noggin-like genes control dorsoventral axis regeneration in planarians., Molina MD, Neto A, Maeso I, Gómez-Skarmeta JL, Saló E, Cebrià F., Curr Biol. February 22, 2011; 21 (4): 300-5.

A conserved function of the chromatin ATPase Kismet in the regulation of hedgehog expression., Terriente-Félix A, Molnar C, Gómez-Skarmeta JL, de Celis JF., Dev Biol. February 15, 2011; 350 (2): 382-92.

An evolutionarily conserved three-dimensional structure in the vertebrate Irx clusters facilitates enhancer sharing and coregulation., Tena JJ, Alonso ME, de la Calle-Mustienes E, Splinter E, de Laat W, Manzanares M, Gómez-Skarmeta JL., Nat Commun. January 1, 2011; 2 310.

Characterization of new otic enhancers of the pou3f4 gene reveal distinct signaling pathway regulation and spatio-temporal patterns., Robert-Moreno À, Naranjo S, de la Calle-Mustienes E, Gómez-Skarmeta JL, Alsina B., PLoS One. December 31, 2010; 5 (12): e15907.

Multiple enhancers located in a 1-Mb region upstream of POU3F4 promote expression during inner ear development and may be required for hearing., Naranjo S, Voesenek K, de la Calle-Mustienes E, Robert-Moreno A, Kokotas H, Grigoriadou M, Economides J, Van Camp G, Hilgert N, Moreno F, Alsina B, Petersen MB, Kremer H, Gómez-Skarmeta JL., Hum Genet. October 1, 2010; 128 (4): 411-9.

The colorectal cancer risk at 18q21 is caused by a novel variant altering SMAD7 expression., Pittman AM, Naranjo S, Webb E, Broderick P, Lips EH, van Wezel T, Morreau H, Sullivan K, Fielding S, Twiss P, Vijayakrishnan J, Casares F, Qureshi M, Gómez-Skarmeta JL, Houlston RS., Genome Res. June 1, 2009; 19 (6): 987-93.

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., Rodríguez-Seguel E, Alarcón P, Gómez-Skarmeta JL., Dev Biol. May 15, 2009; 329 (2): 258-68.

A dual requirement for Iroquois genes during Xenopus kidney development., Alarcón P, Rodríguez-Seguel E, Fernández-González A, Rubio R, Gómez-Skarmeta JL., Development. October 1, 2008; 135 (19): 3197-207.

Silencing of Smed-betacatenin1 generates radial-like hypercephalized planarians., Iglesias M, Gomez-Skarmeta JL, Saló E, Adell T., Development. April 1, 2008; 135 (7): 1215-21.

Odd-skipped genes encode repressors that control kidney development., Tena JJ, Neto A, de la Calle-Mustienes E, Bras-Pereira C, Casares F, Gómez-Skarmeta JL., Dev Biol. January 15, 2007; 301 (2): 518-31.

Cracking the genome's second code: enhancer detection by combined phylogenetic footprinting and transgenic fish and frog embryos., Allende ML, Manzanares M, Tena JJ, Feijóo CG, Gómez-Skarmeta JL., Methods. July 1, 2006; 39 (3): 212-9.

New technologies, new findings, and new concepts in the study of vertebrate cis-regulatory sequences., Gómez-Skarmeta JL, Lenhard B, Becker TS., Dev Dyn. April 1, 2006; 235 (4): 870-85.

A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts., de la Calle-Mustienes E, Feijóo CG, Manzanares M, Tena JJ, Rodríguez-Seguel E, Letizia A, Allende ML, Gómez-Skarmeta JL., Genome Res. August 1, 2005; 15 (8): 1061-72.

Conserved cross-interactions in Drosophila and Xenopus between Ras/MAPK signaling and the dual-specificity phosphatase MKP3., Gómez AR, López-Varea A, Molnar C, de la Calle-Mustienes E, Ruiz-Gómez M, Gómez-Skarmeta JL, de Celis JF., Dev Dyn. March 1, 2005; 232 (3): 695-708.

Xenopus Xlmo4 is a GATA cofactor during ventral mesoderm formation and regulates Ldb1 availability at the dorsal mesoderm and the neural plate., de la Calle-Mustienes E, Lu Z, Cortés M, Andersen B, Modolell J, Gómez-Skarmeta JL., Dev Biol. December 15, 2003; 264 (2): 564-81.

Xiro homeoproteins coordinate cell cycle exit and primary neuron formation by upregulating neuronal-fate repressors and downregulating the cell-cycle inhibitor XGadd45-gamma., de la Calle-Mustienes E, Glavic A, Modolell J, Gómez-Skarmeta JL., Mech Dev. November 1, 2002; 119 (1): 69-80.

The homeoprotein Xiro1 is required for midbrain-hindbrain boundary formation., Glavic A, Gómez-Skarmeta JL, Mayor R., Development. April 1, 2002; 129 (7): 1609-21.

The Xiro-repressed gene CoREST is expressed in Xenopus neural territories., de la Calle-Mustienes E, Modolell J, Gómez-Skarmeta JL., Mech Dev. January 1, 2002; 110 (1-2): 209-11.

Xiro-1 controls mesoderm patterning by repressing bmp-4 expression in the Spemann organizer., Glavic A, Gómez-Skarmeta JL, Mayor R., Dev Dyn. November 1, 2001; 222 (3): 368-76.

The Iroquois family of genes: from body building to neural patterning., Cavodeassi F, Modolell J, Gómez-Skarmeta JL., Development. August 1, 2001; 128 (15): 2847-55.

A novel function for the Xslug gene: control of dorsal mesendoderm development by repressing BMP-4., Mayor R, Guerrero N, Young RM, Gomez-Skarmeta JL, Cuellar C., Mech Dev. October 1, 2000; 97 (1-2): 47-56.

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., de la Calle-Mustienes E, Gómez-Skarmeta JL., Mech Dev. March 1, 2000; 91 (1-2): 119-29.

Xenopus brain factor-2 controls mesoderm, forebrain and neural crest development., Gómez-Skarmeta JL, de la Calle-Mustienes E, Modolell J, Mayor R., Mech Dev. January 1, 1999; 80 (1): 15-27.

Xiro, a Xenopus homolog of the Drosophila Iroquois complex genes, controls development at the neural plate., Gómez-Skarmeta JL, Glavic A, de la Calle-Mustienes E, Modolell J, Mayor R., EMBO J. January 2, 1998; 17 (1): 181-90.

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