Browsing by Author "Irimia, Manuel"

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  • Angiolini, Francesca; Irimia, Manuel; Chigna, Claudia (eLife, 2019)
    The biological players involved in angiogenesis are only partially defined. Here, we report that endothelial cells (ECs) express a novel isoform of the cell-surface adhesion molecule L1CAM, termed L1-ΔTM. The splicing ...
  • Torres Méndez, Antonio; Bonnal, Sophie; Marquez, Yamile; Roth, Jonathan; Iglesias, Marta; Permanyer, Jon; Almudí, Isabel; O'Hanlon, Dave; Guitart, Tanit; Soller, Matthias; Gingras, Anne-Claude; Gebauer, Fátima; Rentzsch, Fabian; Blencowe, Benjamin J.; Valcárcel, J. (Juan); Irimia, Manuel (Nature Research, 2019)
    The mechanisms by which entire programmes of gene regulation emerged during evolution are poorly understood. Neuronal microexons represent the most conserved class of alternative splicing in vertebrates, and are critical ...
  • García-Moreno, Fernando; Anderton, Edward; Jankowska, Marta; Begbie, Jo; Encinas, Juan Manuel; Irimia, Manuel; Molnár, Zoltán (Elsevier, 2018)
    Several neuronal populations orchestrate neocortical development during mammalian embryogenesis. These include the glutamatergic subplate-, Cajal-Retzius-, and ventral pallium-derived populations, which coordinate cortical ...
  • Giampietro, Costanza; Wyatt, Chris Douglas Robert; Irimia, Manuel; Ghigna, Claudia (Nature Publishing Group, 2015)
    Vascular lumen formation is a fundamental step during angiogenesis; yet, the molecular mechanisms underlying this process are poorly understood. Recent studies have shown that neural and vascular systems share common ...
  • Gueroussov, Serge; Gonatopoulos-Pournatzis, Thomas; Irimia, Manuel; Raj, Bushra; Lin, Zhen-Yuan; Gingras, Anne-Claude; Blencowe, Benjamin J. (American Association for the Advancement of Science (AAAS), 2015)
    Alternative splicing (AS) generates extensive transcriptomic and proteomic complexity. However, the functions of species- and lineage-specific splice variants are largely unknown. Here we show that mammalian-specific ...
  • de Mendoza, Alex; Suga, Hiroshi; Permanyer, Jon; Irimia, Manuel; Ruíz Trillo, Iñaki (eLife, 2015)
    Cell-type specification through differential genome regulation is a hallmark of complex multicellularity. However, it remains unclear how this process evolved during the transition from unicellular to multicellular organisms. ...
  • Solana, Jordi; Irimia, Manuel; Ayoub, Salah; Rodriguez Orejuela, Marta; Zywitza, Vera; Jens, Marvin; Tapial, Javier; Ray, Debashish; Morris, Quaid; Hughes, Timothy R.; Blencowe, Benjamin J.; Rajewsky, Nicolaus (eLife, 2016)
    In contrast to transcriptional regulation, the function of alternative splicing (AS) in stem cells is poorly understood. In mammals, MBNL proteins negatively regulate an exon program specific of embryonic stem cells; ...
  • Maeso, Ignacio; Dunwell, Thomas L.; Wyatt, Chris Douglas Robert; Marlétaz, Ferdinand; Vető, Borbála; Bernal, Juan A.; Quah, Shan; Irimia, Manuel; Holland, Peter W. H. (BioMed Central, 2016)
    BACKGROUND: A central goal of evolutionary biology is to link genomic change to phenotypic evolution. The origin of new transcription factors is a special case of genomic evolution since it brings opportunities for novel ...
  • Burguera, Demián; Márquez, Yamile; Racioppi, Claudia; Permanyer, Jon; Torres Méndez, Antonio; Esposito, Rosaria; Albuixech Crespo, Beatriz; Fanlo, Lucía; D'Agostino, Ylenia; Gohr, André; Navas Pérez, Enrique; Riesgo, Ana; Cuomo, Claudia; Benvenuto, Giovanna; Christiaen, Lionel A.; Martí, Elisa; D'Aniello, Salvatore; Spagnuolo, Antonietta; Ristoratore, Filomena; Arnone, Maria Ina; García Fernàndez, Jordi; Irimia, Manuel (Nature Publishing Group, 2017)
    Epithelial-mesenchymal interactions are crucial for the development of numerous animal structures. Thus, unraveling how molecular tools are recruited in different lineages to control interplays between these tissues is key ...
  • Muñoz, Manuel Javier; Nieto Moreno, Nicolás; Giono, Luciana E.; Cambindo Botto, Adrián E.; Dujardin, Gwendal; Bastianello, Giulia; Lavore, Stefania; Torres Méndez, Antonio; Menck, Carlos Frederico Martins; Blencowe, Benjamin J.; Irimia, Manuel; Foiani, Marco; Kornblihtt, Alberto R. (Elsevier, 2017)
    We have previously found that UV irradiation promotes RNA polymerase II (RNAPII) hyperphosphorylation and subsequent changes in alternative splicing (AS). We show now that UV-induced DNA damage is not only necessary but ...
  • Gohr, André; Irimia, Manuel (Oxford University Press, 2019)
    Summary: Tracking thousands of alternative splicing (AS) events genome-wide makes their downstream analysis computationally challenging and laborious. Here, we present Matt, the first UNIX command-line toolkit with focus ...
  • Vigevani, Luisa, 1985-; Gohr, André; Webb, Thomas R.; Irimia, Manuel; Valcárcel, J. (Juan) (Nature Publishing Group, 2017)
    Several splicing-modulating compounds, including Sudemycins and Spliceostatin A, display anti-tumor properties. Combining transcriptome, bioinformatic and mutagenesis analyses, we delineate sequence determinants of the ...
  • Albuixech Crespo, Beatriz; López Blanch, Laura; Burguera, Demián; Maeso, Ignacio; Sánchez Arrones, Luisa; Moreno Bravo, Juan Antonio; Somorjai, Ildikó Maureen Lara; Pascual Anaya, Juan; Puelles, Eduardo; Bovolenta, Paola; García Fernàndez, Jordi; Puelles, Luis; Irimia, Manuel; Ferrán, José Luis E. (Public Library of Science (PLoS), 2017)
    All vertebrate brains develop following a common Bauplan defined by anteroposterior (AP) and dorsoventral (DV) subdivisions, characterized by largely conserved differential expression of gene markers. However, it is still ...
  • Skvortsova, Ksenia; Tarbashevich, Katsiaryna; Stehling, Martin; Lister, Ryan; Irimia, Manuel; Raz, Erez; Bogdanovic, Ozren (Nature Research, 2019)
    Two waves of DNA methylation reprogramming occur during mammalian embryogenesis; during preimplantation development and during primordial germ cell (PGC) formation. However, it is currently unclear how evolutionarily ...