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

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

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  • Pablo Fontecha, Verónica; Hernández-Illán, Eva; Reparaz, Andrea; Asensio Juan, Elena; Morata, Jordi; Tonda, Raúl; Lahoz, Sara; Parra, Carolina; Lozano, Juan José; García-Heredia, Anabel; Martínez-Roca, Alejandro; Beltran, Sergi; Balaguer, Francesc; Jover, Rodrigo; Castells, Antoni; Trullàs, Ramón; Podlesniy, Petar; Camps-Puchadas, Jordi (Nature Research, 2023)
    Somatic single-nucleotide variants (SNVs) occur every time a cell divides, appearing even in healthy tissues at low frequencies. These mutations may accumulate as neutral variants during aging, or eventually, promote the ...
  • Fineberg, Adam; Surrey, Thomas; Kukura, Philipp (Elsevier, 2020)
    The αβ-tubulin heterodimer is the fundamental building block of microtubules, making it central to several cellular processes. Despite the apparent simplicity of heterodimerisation, the associated energetics and kinetics ...
  • Lucas, Morghan C.; Pryszcz, Leszek Piotr, 1985-; Medina, Rebeca; Milenkovic, Ivan; Camacho, Noelia; Marchand, Virginie; Motorin, Yuri; Ribas de Pouplana, Lluís; Novoa, Eva Maria (Nature Research, 2024)
    Transfer RNAs (tRNAs) play a central role in protein translation. Studying them has been difficult in part because a simple method to simultaneously quantify their abundance and chemical modifications is lacking. Here we ...
  • Janssens, Hilde; Siggens, Ken; Cicin Sain, Damjan; Jiménez Guri, Eva; Musy, Marco; Akam, Michael; Jaeger, Johannes, 1973- (BioMed Central, 2014)
    Background: Comparative studies of developmental processes are one of the main approaches to evolutionary developmental biology (evo-devo). Over recent years, there has been a shift of focus from the comparative study of ...
  • Mayer, Jürgen, 1977-; Swoger, Jim; Ozga, Aleksandra J.; Stein, Jens V.; Sharpe, James (Hindawi, 2012)
    Deep tissue imaging has become state of the art in biology, but now the problem is to quantify spatial information in a global, organ-wide context. Although access to the raw data is no longer a limitation, the computational ...
  • Begik, Oguzhan; Lucas, Morghan C.; Pryszcz, Leszek Piotr, 1985-; Ramirez, Jose Miguel; Medina, Rebeca; Milenkovic, Ivan; Cruciani, Sonia; Liu, Huanle; Santos Vieira, Helaine Graziele; Sas Chen, Aldema; Mattick, John S.; Schwartz, Schraga; Novoa, Eva Maria (Nature Research, 2021)
    Nanopore RNA sequencing shows promise as a method for discriminating and identifying different RNA modifications in native RNA. Expanding on the ability of nanopore sequencing to detect N6-methyladenosine, we show that ...
  • Karl R., Wotton; Jiménez Guri, Eva; Crombach, Anton; Janssens, Hilde; Alcaine Colet, Anna, 1992-; Lemke, Steffen; Schmidt Ott, Urs; Jaeger, Johannes, 1973- (eLife, 2015)
    The segmentation gene network in insects can produce equivalent phenotypic outputs despite differences in upstream regulatory inputs between species. We investigate the mechanistic basis of this phenomenon through a ...
  • Kozak, Eva L.; Miranda-Rodríguez, Jerónimo R.; Borges, Augusto; Dierkes, Kai; Mineo, Alessandro; Pinto-Teixeira, Filipo; Viader Llargués, Oriol; Solon, Jérôme; Chara, Osvaldo; López-Schier, Hernán (Company of Biologists, 2023)
    Collective cell rotations are widely used during animal organogenesis. Theoretical and in vitro studies have conceptualized rotating cells as identical rigid-point objects that stochastically break symmetry to move ...
  • Boeckmann, Brigitte; Marcet Houben, Marina; Rees, Jonathan A.; Forslund, Kristoffer; Huerta Cepas, Jaime; Muffato, Matthieu; Yilmaz, Pelin; Xenarios, Ioannis; Bork, Peer; Lewis, Suzanna E.; Gabaldón Estevan, Juan Antonio, 1973-; Quest for Orthologs Species Tree Working Group (Oxford University Press, 2015)
    Quest for Orthologs (QfO) is a community effort with the goal to improve and benchmark orthology predictions. As quality assessment assumes prior knowledge on species phylogenies, we investigated the congruency between ...
  • Sigl, Verena; Vidal Ocabo, Enrique; Penninger, Josef M. (Nature Publishing Group, 2016)
    Breast cancer is the most common female cancer, affecting approximately one in eight women during their life-time. Besides environmental triggers and hormones, inherited mutations in the breast cancer 1 (BRCA1) or BRCA2 ...
  • Amat, Ramon; Böttcher, René; Le Dily, François; Vidal Ocabo, Enrique; Quilez Oliete, Javier; Cuartero, Yasmina; Beato, Miguel; Nadal Clanchet, Eulàlia de; Posas Garriga, Francesc (Cold Spring Harbor Laboratory Press (CSHL Press), 2019)
    Nuclear architecture is decisive for the assembly of transcriptional responses. However, how chromosome organization is dynamically modulated to permit rapid and transient transcriptional changes in response to environmental ...
  • Mathers, Thomas C.; Gabaldón Estevan, Juan Antonio, 1973-; Julca, Irene; Loska, Damian; Hogenhout, Saskia A. (BioMed Central, 2017)
    BACKGROUND: The prevailing paradigm of host-parasite evolution is that arms races lead to increasing specialisation via genetic adaptation. Insect herbivores are no exception and the majority have evolved to colonise a ...
  • Urbizu, Aintzane; Garrett, Melanie E.; Soldano, Karen; Drechsel, Oliver; Loth, Dorothy; Marcé-Grau, Anna; Mestres Soler, Olga; Poca, María A.; Ossowski, Stephan; Macaya, Alfons; Loth, Francis; Labuda, Rick; Ashley-Koch, Allison (Public Library of Science (PLoS), 2021)
    Chiari Malformation Type 1 (CM-1) is characterized by herniation of the cerebellar tonsils below the foramen magnum and the presence of headaches and other neurologic symptoms. Cranial bone constriction is suspected to be ...
  • Matuozzo, Daniela; Gut, Marta; Cobat, Aurélie (BioMed Central, 2023)
    Background: We previously reported that impaired type I IFN activity, due to inborn errors of TLR3- and TLR7-dependent type I interferon (IFN) immunity or to autoantibodies against type I IFN, account for 15-20% of cases ...
  • Kondrashov, Alexey S.; Povolotskaya, Inna, 1986-; Ivankov, Dmitry N.; Kondrashov, Fyodor A., 1979- (BioMed Central, 2010)
    BACKGROUND: Divergence of two independently evolving sequences that originated from a common ancestor can be described by two parameters, the asymptotic level of divergence E and the rate r at which this level of divergence ...
  • Martínez-Jiménez, Francisco, 1988-; Overington, John P.; Al-Lazikani, Bissan; Martí Renom, Marc A. (Nature Publishing Group, 2017)
    Drug resistance is one of the major problems in targeted cancer therapy. A major cause of resistance is changes in the amino acids that form the drug-target binding site. Despite of the numerous efforts made to individually ...
  • Rubia, Ivan de la; Srivastava, Akanksha; Xue, Wenjing; Indi, Joel A.; Carbonell Sala, Silvia; Lagarde, Julien; Albà Soler, Mar; Eyras Jiménez, Eduardo (BioMed Central, 2022)
    Nanopore sequencing enables the efficient and unbiased measurement of transcriptomes. Current methods for transcript identification and quantification rely on mapping reads to a reference genome, which precludes the study ...
  • Aguilar, Ruth; Vidal, Marta; Rubio, Rocío; Jiménez, Alfons; Carolis, Carlo; Mayor, Alfredo; Izquierdo, Luis; Garcia Basteiro, Alberto L.; Moncunill, Gemma; Dobaño, Carlota; Gerhard, Markus (American Society for Microbiology, 2023)
    The ability of antibodies to neutralize severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is an important correlate of protection. For routine evaluation of protection, however, a simple and cost-efficient ...
  • Bechara, Elias; Sebestyén, Endre; Bernardis, Isabella; Eyras Jiménez, Eduardo; Valcárcel, J. (Juan) (Elsevier, 2013)
    RBM5, a regulator of alternative splicing of apoptotic genes, and its highly homologous RBM6 and RBM10 are RNA-binding proteins frequently deleted or mutated in lung cancer. We report that RBM5/6 and RBM10 antagonistically ...
  • Lochmüller, Hanns; Badowska, Dorota M.; Thompson, Rachel; Knoers, Nine V.; Aartsma-Rus, Annemieke; Gut, Ivo Glynne; Wood, Libby; Harmuth, Tina; Durudas, Andre; Graessner, Holm; Schaefer, Franz; Riess, Olaf; RD-Connect consortium; NeurOmics consortium; EURenOmics consortium (Nature Research, 2018)
    Although individually uncommon, rare diseases (RDs) collectively affect 6-8% of the population. The unmet need of the rare disease community was recognized by the European Commission which in 2012 funded three flagship ...

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