Articles (Center for Genomic Regulation (CRG))

 

Recent Submissions

  • Merkel, Angelika; Fernández Callejo, Marcos; Casals, Eloi; Marco Sola, Santiago; Schuyler, Ronald P.; Gut, Ivo Glynne; Heath, Simon (Oxford University Press, 2019)
    Motivation: DNA methylation is essential for normal embryogenesis and development in mammals and can be captured at single base pair resolution by whole genome bisulfite sequencing (WGBS). Current available analysis tools ...
  • Díaz-Gay, Marcos; Park, Solip; Parra Farré, Genís; Laurie, Steven, 1973-; Beltran, Sergi; Castellví Bel, Sergi (MDPI, 2019)
    Colorectal cancer (CRC) shows aggregation in some families but no alterations in the known hereditary CRC genes. We aimed to identify new candidate genes which are potentially involved in germline predisposition to familial ...
  • Brial, Francois; Le Lay, Aurélie; Hedjazi, Lyamine; Tsang, Tsz; Fearnside, Jane F.; Otto, Georg W.; Alzaid, Fawaz; Wilder, Steven P.; Venteclef, Nicolas; Cazier, Jean-Baptiste; Nicholson, Jeremy K.; Day, Chris; Burt, Alastair D.; Gut, Ivo Glynne; Lathrop, Mark; Dumas, Marc-Emmanuel; Gauguier, Dominique (Nature Research, 2019)
    Non-alcoholic fatty liver disease (NAFLD) is often associated with obesity and type 2 diabetes. To disentangle etiological relationships between these conditions and identify genetically-determined metabolites involved in ...
  • Quintana-Gallardo, Lucía; Martín-Benito, Jaime; Marcilla, Miguel; Espadas, Guadalupe; Sabidó Aguadé, Eduard, 1981-; Valpuesta, José M. (Nature Research, 2019)
    Some molecular chaperones are involved not only in assisting the folding of proteins but also, given appropriate conditions, in their degradation. This is the case for Hsp70 and Hsp90 which, in concert with the cochaperone ...
  • Souriant, Shanti; Lastrucci, Claire; Vérollet, Christel (Elsevier, 2019)
    The tuberculosis (TB) bacillus, Mycobacterium tuberculosis (Mtb), and HIV-1 act synergistically; however, the mechanisms by which Mtb exacerbates HIV-1 pathogenesis are not well known. Using in vitro and ex vivo cell culture ...
  • Francesconi, Mirko; Di Stefano, Bruno, 1984-; Berenguer, Clara; de Andrés-Aguayo, Luisa; Plana-Carmona, Marcos; Mendez-Lago, Maria; Guillaumet-Adkins, Amy; Rodríguez Esteban, Gustavo; Gut, Marta; Gut, Ivo Glynne; Heyn, Holger; Lehner, Ben, 1978-; Graf, T. (Thomas) (eLife, 2019)
    Forced transcription factor expression can transdifferentiate somatic cells into other specialised cell types or reprogram them into induced pluripotent stem cells (iPSCs) with variable efficiency. To better understand the ...
  • Di Carlo, Valerio; Mocavini, Ivano; Di Croce, Luciano (Rockefeller University Press, 2019)
    Epigenetic mechanisms are crucial for sustaining cell type-specific transcription programs. Among the distinct factors, Polycomb group (PcG) proteins are major negative regulators of gene expression in mammals. These ...
  • Gopalakrishnan, Shyam; Montero, Marc de Manuel; Kuderna, Lukas F.K.; Serres Armero, Aitor; González-Basallote, Víctor Manuel; Marquès i Bonet, Tomàs, 1975-; Gilbert, M Thomas (Elsevier, 2018)
    The evolutionary history of the wolf-like canids of the genus Canis has been heavily debated, especially regarding the number of distinct species and their relationships at the population and species level [1-6]. We assembled ...
  • Iacono, Giovanni; Mereu, Elisabetta; Guillaumet-Adkins, Amy; Corominas, Roser; Cuscó Martí, Ivon, 1973-; Rodríguez Esteban, Gustavo; Gut, Marta; Pérez Jurado, Luis Alberto; Gut, Ivo Glynne; Heyn, Holger (Cold Spring Harbor Laboratory Press (CSHL Press), 2018)
    Single-cell RNA sequencing (scRNA-seq) has significantly deepened our insights into complex tissues, with the latest techniques capable of processing tens of thousands of cells simultaneously. Analyzing increasing numbers ...
  • Vizcaya-Molina, Elena; Klein, Cecilia C.; Serras Rigalt, Florenci; Mishra, Rakesh K.; Guigó Serra, Roderic; Corominas Guiu, Montserrat (Cold Spring Harbor Laboratory Press (CSHL Press), 2018)
    One of the most important questions in regenerative biology is to unveil how and when genes change expression and trigger regeneration programs. The resetting of gene expression patterns during response to injury is governed ...
  • Lorente-Galdós, Belén, 1981-; Lao Grueso, Oscar, 1976-; Serra Vidal, Gerard, 1989-; Santpere Baró, Gabriel, 1981-; Kuderna, Lukas F.K.; Arauna, Lara R; Fadhlaoui-Zid, Karima; Pimenoff, Ville N.; Soodyall, Himla; Zalloua, Pierre A.; Marquès i Bonet, Tomàs, 1975-; Comas, David, 1969- (BioMed Central, 2019)
    Background: Population demography and gene flow among African groups, as well as the putative archaic introgression of ancient hominins, have been poorly explored at the genome level. Results: Here, we examine 15 African ...
  • Torre Fornell, Rafael de la; De Sola Llopis, Susana; Xicota Vila, Laura, 1987-; Cuenca Royo, Aida Ma, 1981-; Rodriguez, Joan; Gomis González, Maria; Hernández, Gimena; Del Hoyo Soriano, Laura; Ozaita Mintegui, Andrés, 1969-; Dierssen, Mara; TESXF Study Group; Principe, Alessandro; Espadaler, Josep María; Roca, Laia; Del Hoyo Soriano, Laura; Farré Albaladejo, Magí; Fitó Colomer, Montserrat; León Jorba, Alba; Banea, Ovideo; Maldonado, Rafael, 1961-; Busquets Garcia, Arnau, 1985- (Elsevier, 2019)
    Background & aims: Despite the wide spectrum of experimental compounds tested in clinical trials, there is still no proven pharmacological treatment available for Fragile-X syndrome (FXS), since several targeted clinical ...
  • Garrido-Martín, Diego; Palumbo, Emilio; Guigó Serra, Roderic; Breschi, Alessandra, 1988- (Public Library of Science (PLoS), 2018)
    We present ggsashimi, a command-line tool for the visualization of splicing events across multiple samples. Given a specified genomic region, ggsashimi creates sashimi plots for individual RNA-seq experiments as well as ...
  • Guigó Serra, Roderic; de Hoon, Michiel (F1000Research, 2018)
    At the beginning of this century, the Human Genome Project produced the first drafts of the human genome sequence. Following this, large-scale functional genomics studies were initiated to understand the molecular basis ...
  • 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 ...
  • Ricci, Maria Aurelia, 1985-; Cosma, Maria Pia, 1970-; Lakadamyali, Melike (Elsevier, 2017)
    Chromatin fiber organization is essential for gene function in all cell types. Moreover it helps to determine cell fate in embryonic/adult stem cells and in somatic cells undergoing reprogramming to pluripotency. Until now ...
  • Puente, Xosé S.; Escaramís, Geòrgia; Bassaganyas Bars, Laia, 1985-; Tubio, José M. C.; Tornador Antolin, Cristian, 1979-; Himmelbauer, Heinz; Castillo Andreo, Esther; Dohm, Juliane C.; Guigó Serra, Roderic; Estivill, Xavier, 1955-; Campo, Elias (Nature Research, 2011)
    Chronic lymphocytic leukaemia (CLL), the most frequent leukaemia in adults in Western countries, is a heterogeneous disease with variable clinical presentation and evolution. Two major molecular subtypes can be distinguished, ...
  • Taal, H. Rob; Guxens Junyent, Mònica; Sunyer Deu, Jordi; Estivill, Xavier, 1955-; Jaddoe, Vincent W. V. (Nature Research, 2012)
    To identify genetic variants associated with head circumference in infancy, we performed a meta-analysis of seven genome-wide association studies (GWAS) (N = 10,768 individuals of European ancestry enrolled in pregnancy ...
  • Lagarde, Julien; Uszczynska-Ratajczak, Barbara; Carbonell, Silvia; Pérez-Lluch, Sílvia; Davis, Carrie A.; Gingeras, Thomas R.; Frankish, Adam; Harrow, Jennifer; Guigó Serra, Roderic; Johnson, Rory (Nature Research, 2017)
    Accurate annotation of genes and their transcripts is a foundation of genomics, but currently no annotation technique combines throughput and accuracy. As a result, reference gene collections remain incomplete-many gene ...
  • Ardlie, Kristin G.; Guigó Serra, Roderic (Elsevier, 2017)
    Characterizing and interpreting the function of the millions of genetic variants in the human genome is a pressing need in medical and evolutionary genomics and is fundamental to understanding the molecular, cellular, and ...

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