Welcome to the UPF Digital Repository

Browsing Articles (Center for Genomic Regulation (CRG)) by Title

Browsing Articles (Center for Genomic Regulation (CRG)) by Title

Sort by: Order: Results:

  • Assessing the limits of restraint-based 3D modeling of genomes and genomic domains
    Trussart, Marie, 1985-; Serra, François; Baù, Davide; Junier, Ivan; Serrano Pubull, Luis, 1982-; Martí Renom, Marc A. (Oxford University Press, 2015)
    Restraint-based modeling of genomes has been recently explored with the advent of Chromosome Conformation Capture (3C-based) experiments. We previously developed a reconstruction method to resolve the 3D architecture of ...
  • Assessment of transcript reconstruction methods for RNA-seq
    Steijger, Tamara; Guigó Serra, Roderic; RGASP Consortium (Nature Publishing Group, 2013)
    We evaluated 25 protocol variants of 14 independent computational methods for exon identification, transcript reconstruction and expression-level quantification from RNA-seq data. Our results show that most algorithms are ...
  • Association between telomere length and cognitive function among cognitively unimpaired individuals at risk of Alzheimer's disease
    Rodríguez-Fernández, Blanca; Sánchez Benavides, Gonzalo; Genius, Patricia; Minguillón, Carolina; Fauria, Karine; De Vivo, Immaculata; Navarro i Cuartiellas, Arcadi, 1969-; Molinuevo, José Luis; Gispert López, Juan Domingo; Sala Vila, Aleix; Vilor Tejedor, Natàlia, 1988-; Crous-Bou, Marta; ALFA Study (Elsevier, 2024)
    Introduction: Leukocyte telomere length (LTL) is an objective biomarker of biological aging, and it is proposed to play a crucial role in Alzheimer's disease (AD) risk. We aimed at evaluating the cross-sectional association ...
  • Association of fish consumption and mercury exposure during pregnancy with metabolic health and inflammatory biomarkers in children
    Stratakis, Nikos; Borràs, Eva; Sabidó Aguadé, Eduard, 1981-; Basagaña Flores, Xavier; Bustamante Pineda, Mariona; Casas Sanahuja, Maribel; Fossati, Serena; González Ruiz, Juan Ramón; Maitre, Léa; Urquiza, José M.; Vrijheid, Martine; Chatzi, Leda (JAMA Network, 2020)
    IMPORTANCE: The balance of mercury risk and nutritional benefit from fish intake during pregnancy for the metabolic health of offspring to date is unknown. OBJECTIVE: To assess the associations of fish intake and mercury ...
  • Association of irisin with fat mass, resting energy expenditure, and daily activity in conditions of extreme body mass index
    Pardo, María Luisa; Crujeiras, Ana B.; Amil, María; Agüera, Zaida; Jiménez Murcia, Susana; Baños, Rosa M.; Botella, Cristina; Torre Fornell, Rafael de la; Estivill, Xavier, 1955-; Fagundo, Ana B.; Fernández Real, Jose M.; Fernández García, José C.; Frühbeck, Gema; Gómez Ambrosi, Javier; Rodríguez, Roser; Tinahones Madueño, Francisco José; Fernández Aranda, Fernando; Casanueva, Felipe F. (Hindawi, 2014)
    FNDC5/irisin has been recently postulated as beneficial in the treatment of obesity and diabetes because it is induced in muscle by exercise, increasing energy expenditure. However, recent reports have shown that WAT also ...
  • Associations between air pollution and biomarkers of Alzheimer's disease in cognitively unimpaired individuals
    Alemany, Silvia; Vilor Tejedor, Natàlia, 1988-; Milà Alomà, Marta; Suárez-Calvet, Marc; Salvadó, Gemma; Arenaza Urquijo, Eider M.; Sánchez Benavides, Gonzalo; Grau-Rivera, Oriol; Minguillón, Carolina; Fauria, Karine; Domingo Gispert, Juan; Gascon Merlos, Mireia, 1984-; Nieuwenhuijsen, Mark J.; Sunyer Deu, Jordi; ALFA Study (Elsevier, 2021)
    Background: Air quality contributes to incidence of Alzheimer's disease (AD) although the underlying neurobiological mechanisms are unclear. This study was aimed to examine the association between air pollution and ...
  • Associations between variant repeat interruptions and clinical outcomes in myotonic dystrophy type 1
    Wenninger, Stephan; Cumming, Sarah A.; Gutschmidt, Kristina; Okkersen, Kees; Jimenez-Moreno, Aura Cecilia; Daidj, Ferroudja; Lochmüller, Hanns; Hogarth, Fiona; Knoop, Hans; Bassez, Guillaume; Monckton, Darren G.; van Engelen, Baziel G.M.; Schoser, Benedikt (Wolters Kluwer (LWW), 2021)
    Objective: To assess the association between variant repeat (VR) interruptions in patients with myotonic dystrophy type 1 (DM1) and clinical symptoms and outcome measures after cognitive behavioral therapy (CBT) intervention. ...
  • Asymptotics of the frequency spectrum for general Dirichlet Ξ-coalescents
    González-Casanova, Adrián; Miró Pina, Verónica; Schertzer, Emmanuel; Siri-Jégousse, Arno (Institute of Mathematical Statistics, 2024)
    In this work, we study general Dirichlet coalescents, which are a family of Ξ-coalecents constructed from i.i.d mass partitions, and are an extension of the symmetric coalescent. This class of models is motivated by ...
  • Atad2 is a generalist facilitator of chromatin dynamics in embryonic stem cells
    Morozumi, Yuichi; Gut, Marta; Khochbin, Saadi (Oxford University Press, 2016)
    Although the conserved AAA ATPase and bromodomain factor, ATAD2, has been described as a transcriptional co-activator upregulated in many cancers, its function remains poorly understood. Here, using a combination of ChIP-seq, ...
  • Ataxin-2, Twenty-four, and Dicer-2 are components of a noncanonical cytoplasmic polyadenylation complex
    Nadimpalli, Hima Priyanka, 1988-; Guitart, Tanit; Coll, Olga; Gebauer, Fátima (Life Science Alliance, 2022)
    Cytoplasmic polyadenylation is a mechanism to promote mRNA translation in a wide variety of biological contexts. A canonical complex centered around the conserved RNA-binding protein family CPEB has been shown to be ...
  • ATM germline variants in a young adult with chronic lymphocytic leukemia: 8 years of genomic evolution
    Royo, Romina; Magnano, Laura; Delgado González, Julio; Ruiz Gil, Sara; Gelpí, Josep Lluís; Heyn, Holger; Taylor, Malcom A.; Stankovic, Tatjana; Puente, Xosé S.; Nadeu, Ferran; Campo, Elias (Nature Research, 2022)
  • Atomic-level mechanism of Pre-mRNA splicing in health and disease
    Borišek, Jure; Casalino, Lorenzo; Saltalamacchia, Andrea; Mays, Suzanne G.; Malcovati, Luca; Magistrato, Alessandra (American Chemical Society (ACS), 2021)
    Intron removal from premature-mRNA (pre-mRNA splicing) is an essential part of gene expression and regulation that is required for the production of mature, protein-coding mRNA. The spliceosome (SPL), a majestic machine ...
  • Atomic-resolution mapping of transcription factor-DNA interactions by femtosecond laser crosslinking and mass spectrometry
    Reim, Alexander; Ackermann, Roland; Font Mateu, Jofre, 1977-; Kammel, Robert; Beato, Miguel; Nolte, Stefan; Mann, Matthias; Russmann, Christoph; Wierer, Michael, 1982- (Nature Research, 2020)
    Transcription factors (TFs) regulate target genes by specific interactions with DNA sequences. Detecting and understanding these interactions at the molecular level is of fundamental importance in biological and clinical ...
  • ATP, Mg2+, nuclear phase separation, and genome accessibility
    Wright, Roni H.G.; Le Dily, François; Beato, Miguel (Elsevier, 2019)
    Misregulation of the processes controlling eukaryotic gene expression can result in disease. Gene expression is influenced by the surrounding chromatin; hence the nuclear environment is also of vital importance. Recently, ...
  • Attenuation artifacts in light sheet fluorescence microscopy corrected by OPTiSPIM
    Mayer, Jürgen, 1977-; Robert Moreno, Alexandre; Sharpe, James; Swoger, Jim (Nature Research, 2018)
    Light sheet fluorescence microscopy (LSFM) is rapidly becoming an essential technology for mesoscopic imaging of samples such as embryos and adult mouse organs. However, LSFM can suffer from optical artifacts for which ...
  • Atypical cortical hierarchy in Aβ-positive older adults and its reflection in spontaneous speech
    He, Rui; Al-Tamimi, Jalal; Sánchez Benavides, Gonzalo; Montaña Valverde, Guillermo; Gispert López, Juan Domingo; Grau-Rivera, Oriol; Suárez-Calvet, Marc; Minguillón, Carolina; Fauria, Karine; Navarro i Cuartiellas, Arcadi, 1969-; Hinzen, Wolfram (Elsevier, 2024)
    Abnormal deposition of Aβ amyloid is an early neuropathological marker of Alzheimer's disease (AD), arising long ahead of clinical symptoms. Non-invasive measures of associated early neurofunctional changes, together with ...
  • Aurora-A regulates MCRS1 function during mitosis
    Meunier, Sylvain; Timón Pérez, Krystal, 1987-; Vernos, Isabelle, 1959- (Taylor & Francis (Routledge), 2016)
    The mitotic spindle is made of microtubules (MTs) nucleated through different pathways involving the centrosomes, the chromosomes or the walls of pre-existing MTs. MCRS1 is a RanGTP target that specifically associates with ...
  • Aurora-A-Dependent control of TACC3 influences the rate of mitotic spindle assembly
    Burgess, Selena G.; Peset, Isabel; Joseph, Nimesh; Cavazza, Tommaso, 1985-; Vernos, Isabelle, 1959-; Pfuhl, Mark; Gergely, Fanni; Bayliss, Richard (Public Library of Science (PLoS), 2015)
    The essential mammalian gene TACC3 is frequently mutated and amplified in cancers and its fusion products exhibit oncogenic activity in glioblastomas. TACC3 functions in mitotic spindle assembly and chromosome segregation. ...
  • Automatic analysis and 3D-modelling of Hi-C data using TADbit reveals structural features of the fly chromatin colors
    Serra, François; Baù, Davide; Goodstadt, Michael; Castillo Andreo, David; Filion, Guillaume; Martí Renom, Marc A. (Public Library of Science (PLoS), 2017)
    The sequence of a genome is insufficient to understand all genomic processes carried out in the cell nucleus. To achieve this, the knowledge of its three-dimensional architecture is necessary. Advances in genomic technologies ...
  • Automatic identification of informative regions with epigenomic changes associated to hematopoiesis
    Carrillo-de-Santa Pau, Enrique; Juan, David; Pancaldi, Vera; Were, Felipe; Martin-Subero, José Ignacio; Rico, Daniel; Valencia, Alfonso; BLUEPRINT Consortium (Oxford University Press, 2017)
    Hematopoiesis is one of the best characterized biological systems but the connection between chromatin changes and lineage differentiation is not yet well understood. We have developed a bioinformatic workflow to generate ...

Search DSpace


Advanced Search

Browse

My Account

In collaboration with Compliant to Partaking