Publications by authors named "Rafael D Acemel"

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Chromatin Interaction and Histone Mark Signatures Associated With TBXT Expression in Metastatic Lung Cancer.
Reuben M Yaa, Brian M Schilder, Rafael D Acemel, Fiona C Wardle

Genes Chromosomes Cancer· March 2025

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Gonadal sex and temperature independently influence germ cell differentiation and meiotic progression in .
Talia Hatkevich, Boris M Tezak, Rafael D Acemel, Vicky Wai Yee Chung, Dario G Lupiáñez

Proc Natl Acad Sci U S A· January 2025

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The little skate genome and the evolutionary emergence of wing-like fins.
Ferdinand Marlétaz, Elisa de la Calle-Mustienes, Rafael D Acemel, Christina Paliou, Silvia Naranjo

Nature· April 2023

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Evolution of 3D chromatin organization at different scales.
Rafael D Acemel, Darío G Lupiáñez

Curr Opin Genet Dev· February 2023

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Parallel evolution of amphioxus and vertebrate small-scale gene duplications.
Marina Brasó-Vives, Ferdinand Marlétaz, Amina Echchiki, Federica Mantica, Rafael D Acemel

Genome Biol· November 2022

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Regulatory Architecture of the RCA Gene Cluster Captures an Intragenic TAD Boundary, CTCF-Mediated Chromatin Looping and a Long-Range Intergenic Enhancer.
Jessica Cheng, Joshua S Clayton, Rafael D Acemel, Ye Zheng, Rhonda L Taylor

Front Immunol· July 2022

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Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements.
Damir Baranasic, Matthias Hörtenhuber, Piotr J Balwierz, Tobias Zehnder, Abdul Kadir Mukarram, Rafael D Acemel

Nat Genet· July 2022

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In vivo dissection of a clustered-CTCF domain boundary reveals developmental principles of regulatory insulation.
Chiara Anania, Rafael D Acemel, Johanna Jedamzick, Adriano Bolondi, Giulia Cova

Nat Genet· July 2022

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Pluripotency factors regulate the onset of cluster activation in the early embryo.
María Tiana, Elena Lopez-Jimenez, Julio Sainz de Aja, Antonio Barral, Jesus Victorino, Rafael D Acemel

Sci Adv· July 2022

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MacroH2As regulate enhancer-promoter contacts affecting enhancer activity and sensitivity to inflammatory cytokines.
David Corujo, Roberto Malinverni, Juan Carrillo-Reixach, Oliver Meers, Arce Garcia-Jaraquemada, Rafael D Acemel

Cell Rep· June 2022

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Multidimensional chromatin profiling of zebrafish pancreas to uncover and investigate disease-relevant enhancers.
Renata Bordeira-Carriço, Joana Teixeira, Marta Duque, Mafalda Galhardo, Diogo Ribeiro, Rafael D Acemel

Nat Commun· April 2022

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Gain of gene regulatory network interconnectivity at the origin of vertebrates.
Alejandro Gil-Gálvez, Sandra Jiménez-Gancedo, Alberto Pérez-Posada, Martin Franke, Rafael D Acemel

Proc Natl Acad Sci U S A· March 2022

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CTCF knockout in zebrafish induces alterations in regulatory landscapes and developmental gene expression.
Martin Franke, Elisa De la Calle-Mustienes, Ana Neto, María Almuedo-Castillo, Ibai Irastorza-Azcarate, Rafael D Acemel

Nat Commun· September 2021

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Ancient Genomic Regulatory Blocks Are a Source for Regulatory Gene Deserts in Vertebrates after Whole-Genome Duplications.
María Touceda-Suárez, Elizabeth M Kita, Rafael D Acemel, Panos N Firbas, Marta S Magri

Mol Biol Evol· October 2020

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Pioneer and repressive functions of p63 during zebrafish embryonic ectoderm specification.
José M Santos-Pereira, Lourdes Gallardo-Fuentes, Ana Neto, Rafael D Acemel, Juan J Tena

Nat Commun· July 2019

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Reprogramming Nuclear Architecture: Just a TAD.
Rafael D Acemel, José Luis Gómez-Skarmeta

Cell Stem Cell· May 2019

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Amphioxus functional genomics and the origins of vertebrate gene regulation.
Ferdinand Marlétaz, Panos N Firbas, Ignacio Maeso, Juan J Tena, Ozren Bogdanovic, Rafael D Acemel

Nature· December 2018

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A common copy-number variant within SIRPB1 correlates with human Out-of-Africa migration after genetic drift correction.
Jose Luis Royo, Joan Valls, Rafael D Acemel, Carlos Gómez-Marin, Mariona Pascual-Pons

PLoS One· June 2018

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4Cin: A computational pipeline for 3D genome modeling and virtual Hi-C analyses from 4C data.
Ibai Irastorza-Azcarate, Rafael D Acemel, Juan J Tena, Ignacio Maeso, José Luis Gómez-Skarmeta

PLoS Comput Biol· March 2018

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Computer simulation study of early bacterial biofilm development.
Rafael D Acemel, Fernando Govantes, Alejandro Cuetos

Sci Rep· March 2018

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Regulatory landscape fusion in rhabdomyosarcoma through interactions between the PAX3 promoter and FOXO1 regulatory elements.
Cristina Vicente-García, Barbara Villarejo-Balcells, Ibai Irastorza-Azcárate, Silvia Naranjo, Rafael D Acemel

Genome Biol· June 2017

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Topologically associated domains: a successful scaffold for the evolution of gene regulation in animals.
Rafael D Acemel, Ignacio Maeso, José Luis Gómez-Skarmeta

Wiley Interdiscip Rev Dev Biol· May 2017

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Cis-regulatory landscapes in development and evolution.
Ignacio Maeso, Rafael D Acemel, José Luis Gómez-Skarmeta

Curr Opin Genet Dev· April 2017

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Biofilm formation-defective mutants in Pseudomonas putida.
Aroa López-Sánchez, Antonio Leal-Morales, Lorena Jiménez-Díaz, Ana I Platero, Juan Bardallo-Pérez, Rafael D Acemel

FEMS Microbiol Lett· July 2016

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A single three-dimensional chromatin compartment in amphioxus indicates a stepwise evolution of vertebrate Hox bimodal regulation.
Rafael D Acemel, Juan J Tena, Ibai Irastorza-Azcarate, Ferdinand Marlétaz, Carlos Gómez-Marín

Nat Genet· March 2016

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