Browsing Center for Genomic Regulation (CRG) by Title

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  • L amino acid transporter structure and molecular bases for the asymmetry of substrate interaction
    Errasti-Murugarren, Ekaitz; Fort, Joana; Bartoccioni, Paola; Díaz, Lucía; Pardon, Els; Carpena, Xavier; Espino Guarch, Meritxell; Zorzano, Antonio; Ziegler, Christine; Steyaert, Jan; Fernández Recio, Juan; Fita, Ignacio; Palacín Mateo, Manuel (Nature Research, 2019)
    L-amino acid transporters (LATs) play key roles in human physiology and are implicated in several human pathologies. LATs are asymmetric amino acid exchangers where the low apparent affinity cytoplasmic side controls the ...
  • Labelled regulatory elements are pervasive features of the macrophage genome and are dynamically utilized by classical and alternative polarization signals
    Horvath, Attila; Daniel, Bence; Szeles, Lajos; Cuaranta-Monroy, Ixchelt; Czimmerer, Zsolt; Ozgyin, Lilla; Steiner, Laszlo; Kiss, Mate; Simandi, Zoltan; Poliska, Szilard; Giannakis, Nikolas; Raineri, Emanuele; Gut, Ivo Glynne; Nagy, Benedek; Nagy, Laszlo (Oxford University Press, 2019)
    The concept of tissue-specific gene expression posits that lineage-determining transcription factors (LDTFs) determine the open chromatin profile of a cell via collaborative binding, providing molecular beacons to ...
  • Lack of support for the association between facial shape and aggression: a reappraisal based on a worldwide population genetics perspective
    Gómez-Valdés, Jorge; Hünemeier, Tábita; Quinto-Sánchez, Mirsha; Paschetta, Carolina; de Azevedo, Soledad; González, Marina F.; Martínez Abadías, Neus; Esparza, Mireia; Pucciarelli, Héctor M.; Salzano, Francisco Mauro; Bau, Claiton H. D.; Bortolini, Maria Cátira; González-José, Rolando (Public Library of Science (PLoS), 2013)
    Antisocial and criminal behaviors are multifactorial traits whose interpretation relies on multiple disciplines. Since these interpretations may have social, moral and legal implications, a constant review of the evidence ...
  • Lack of tailless leads to an increase in expression variability in Drosophila embryos
    Janssens, Hilde; Crombach, Anton; Wotton, Karl R.; Cicin Sain, Damjan; Surkova, Svetlana; Lim, Chea Lu; Samsonova, Maria; Akam, Michael; Jaeger, Johannes, 1973- (Elsevier, 2013)
    Developmental processes are robust, or canalised: dynamic patterns of gene expression across space and time are regulated reliably and precisely in the presence of genetic and environmental perturbations. It remains unclear ...
  • Lack of the PGA exopolysaccharide in Salmonella as an adaptive trait for survival in the host
    Echeverz, Maite; García, Begoña M.; Sabalza, Amaia; Valle, Jaione; Gabaldón Estevan, Juan Antonio, 1973-; Solano, Cristina; Lasa, Iñigo (Public Library of Science (PLoS), 2017)
    Many bacteria build biofilm matrices using a conserved exopolysaccharide named PGA or PNAG (poly-β-1,6-N-acetyl-D-glucosamine). Interestingly, while E. coli and other members of the family Enterobacteriaceae encode the ...
  • Lamin B1 mapping reveals the existence of dynamic and functional euchromatin lamin B1 domains
    Pascual-Reguant, Laura; Blanco, Enrique; Galan Martínez, Silvia, 1992-; Le Dily, François; Cuartero, Yasmina; Serra Bardenys, Gemma, 1992-; Di Carlo, Valerio; Iturbide Martínez de Albéniz, Ane, 1989-; Cebrià i Costa, Joan Pau, 1989-; Nonell Mazelon, Lara, 1972-; García de Herreros, Antonio; Di Croce, Luciano; Marti-Renom, Marc A.; Peiró Sales, Sandra (Nature Publishing Group, 2018)
    Lamins (A/C and B) are major constituents of the nuclear lamina (NL). Structurally conserved lamina-associated domains (LADs) are formed by genomic regions that contact the NL. Lamins are also found in the nucleoplasm, ...
  • Lamivudine, a reverse transcriptase inhibitor, rescues cognitive deficits in a mouse model of down syndrome
    Martínez de Lagrán Cabredo, María; Elizalde-Torrent, Aleix; Paredes, Roger; Clotet, Bonaventura; Dierssen, Mara (Wiley, 2022)
    An elevated activity of retrotransposons is increasingly recognized to be implicated in a wide range of neurodegenerative and neurodevelopmental diseases. Down syndrome (DS) is the most common genetic disorder associated ...
  • Landscape of transcription in human cells
    Djebali, Sarah; Merkel, Angelika; Tanzer, Andrea; Lagarde, Julien; Röder, Maik; Curado, Joao; Derrien, Thomas; Ferreira, Pedro G.; González, David; Johnson, Rory; Kingswood, Colin; Ribeca, Paolo; Sammeth, Michael; Skancke, Jorgen; Tilgner, Hagen, 1980-; Guigó Serra, Roderic; Gingeras, Thomas R. (Nature Publishing Group, 2012)
    Eukaryotic cells make many types of primary and processed RNAs that are found either in specific subcellular compartments or throughout the cells. A complete catalogue of these RNAs is not yet available and their characteristic ...
  • Landscape of X chromosome inactivation across human tissues
    Tukiainen, Taru; Guigó Serra, Roderic; MacArthur, Daniel G.; Genotype-Tissue Expression (GTEx) Consortium (Nature Publishing Group, 2017)
    X chromosome inactivation (XCI) silences transcription from one of the two X chromosomes in female mammalian cells to balance expression dosage between XX females and XY males. XCI is, however, incomplete in humans: up to ...
  • Large expert-curated database for benchmarking document similarity detection in biomedical literature search
    Brown, Peter; Raote, Ishier; RELISH Consortium; Zhou, Yaoqi (Oxford University Press, 2019)
    Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that ...
  • Large-scale analysis of genome and transcriptome alterations in multiple tumors unveils novel cancer-relevant splicing networks
    Sebestyén, Endre; Singh, Babita, 1986-; Miñana Gómez, Belén; Pagès Pinós, Amadís; Mateo, Francesc; Pujana, Miguel Angel; Valcárcel, J. (Juan); Eyras Jiménez, Eduardo (Cold Spring Harbor Laboratory Press (CSHL Press), 2016)
    Alternative splicing is regulated by multiple RNA-binding proteins and influences the expression of most eukaryotic genes. However, the role of this process in human disease, and particularly in cancer, is only starting ...
  • Late acquisition of mitochondria by a host with chimaeric prokaryotic ancestry
    Pittis, Alexandros, 1982-; Gabaldón Estevan, Juan Antonio, 1973- (Nature Publishing Group, 2016)
    The origin of eukaryotes stands as a major conundrum in biology. Current evidence indicates that the last eukaryotic common ancestor already possessed many eukaryotic hallmarks, including a complex subcellular organization. ...
  • LATS1 controls CTCF chromatin occupancy and hormonal response of 3D-grown breast cancer cells
    Ramírez Cuéllar, Angélica Julieta; Ferrari, Roberto; Sanz, Rosario T.; Valverde Santiago, Marta; García García, Judith; Nacht, A. Silvina; Castillo, David; Le Dily, François; Neguembor, Maria Victoria; Malatesta, Marco; Bonnin, Sarah; Martí Renom, Marc A.; Beato, Miguel; Vicent, Guillermo Pablo (Nature Research, 2024)
    The cancer epigenome has been studied in cells cultured in two-dimensional (2D) monolayers, but recent studies highlight the impact of the extracellular matrix and the three-dimensional (3D) environment on multiple cellular ...
  • LCOR mediates interferon-independent tumor immunogenicity and responsiveness to immune-checkpoint blockade in triple-negative breast cancer
    Pérez-Núñez, Iván; Rozalén, Catalina; Palomeque, José Ángel; Sangrador, Irene; Dalmau, Mariona; Comerma Blesa, Laura, 1983-; Hernández Prat, Anna, 1984-; Casadevall Aguilar, David; Menendez Romero, Silvia; Liu, Dan; Berenguer De Felipe, Jordi; Peña Arranz, Raúl, 1976-; Montañés, José Carlos; Albà Soler, Mar; Bonnin, Sarah; Ponomarenko, Julia; Servitja Tormo, Sonia; Arribas, Joaquín; Albanell Mestres, Joan; Celià-Terrassa, Toni (Nature Research, 2022)
    Ligand-dependent corepressor (LCOR) mediates normal and malignant breast stem cell differentiation. Cancer stem cells (CSCs) generate phenotypic heterogeneity and drive therapy resistance, yet their role in immunotherapy ...
  • Leveraging base-pair mammalian constraint to understand genetic variation and human disease
    Sullivan, Patrick F.; Zoonomia Consortium; Lindblad-Toh, Kerstin (American Association for the Advancement of Science (AAAS), 2023)
    Thousands of genomic regions have been associated with heritable human diseases, but attempts to elucidate biological mechanisms are impeded by an inability to discern which genomic positions are functionally important. ...
  • Leveraging European infrastructures to access 1 million human genomes by 2022
    Saunders, Gary; Beltran, Sergi; Gut, Ivo Glynne; Navarro i Cuartiellas, Arcadi, 1969-; Rambla de Argila, Jordi; Scollen, Serena (Nature Research, 2019)
    Human genomics is undergoing a step change from being a predominantly research-driven activity to one driven through health care as many countries in Europe now have nascent precision medicine programmes. To maximize the ...
  • Leveraging transcript quantification for fast computation of alternative splicing profiles
    Alamancos, Gael P.; Pagès Pinós, Amadís; Trincado Alonso, Juan Luis, 1987-; Bellora Pereyra, Nicolás; Eyras Jiménez, Eduardo (Cambridge University Press, 2015)
    Alternative splicing plays an essential role in many cellular processes and bears major relevance in the understanding of multiple diseases, including cancer. High-throughput RNA sequencing allows genome-wide analyses of ...
  • LifeTime and improving European healthcare through cell-based interceptive medicine
    Rajewsky, Nicolaus; Bertero, Michela G.; Martí Renom, Marc A.; LifeTime Community (Nature Research, 2020)
    LifeTime aims to track, understand and target human cells during the onset and progression of complex diseases and their response to therapy at single-cell resolution. This mission will be implemented through the development ...
  • Ligand-target prediction by structural network biology using nAnnoLyze
    Martínez Jiménez, Francisco; Martí Renom, Marc A. (Public Library of Science (PLoS), 2015)
    Target identification is essential for drug design, drug-drug interaction prediction, dosage adjustment and side effect anticipation. Specifically, the knowledge of structural details is essential for understanding the ...
  • Light sheet fluorescence microscopy for in situ cell interaction analysis in mouse lymph nodes
    Abe, Jun; Ozga, Aleksandra J.; Swoger, Jim; Sharpe, James; Ripoll, Jorge; Stein, Jens V. (Elsevier, 2016)
    Reactive lymph nodes (LNs) are sites where pMHC-loaded dendritic cells (DCs) interact with rare cognate T cells, leading to their clonal expansion. While DC interactions with T cell subsets critically shape the ensuing ...

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