Browsing by Author "Le Dily, François"

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  • Le Dily, François; Serra, François; Marti-Renom, Marc A. (Wiley, 2017)
    The genome is organized in a hierarchical fashion within the nucleus in interphase. This nonrandom folding of the chromatin fiber is thought to play important roles in the processing of the genetic information. Therefore, ...
  • Beato, Miguel; Wright, Roni H.G.; Le Dily, François (BioScientifica, 2020)
    Gene regulation by steroid hormones has been at the forefront in elucidating the intricacies of transcriptional regulation in eukaryotes ever since the discovery by Karlson and Clever that the insect steroid hormone ecdysone ...
  • 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, ...
  • Nacht, A. Silvina; Ferrari, Roberto; Zaurín Quer, Roser; Scabia, Valentina; Carbonell-Caballero, Jose; Le Dily, François; Quilez Oliete, Javier; Leopoldi, Alexandra; Brisken, Cathrin; Beato, Miguel; Vicent, Guillermo Pablo (EMBO Press, 2019)
    Steroid hormones are key gene regulators in breast cancer cells. While estrogens stimulate cell proliferation, progestins activate a single cell cycle followed by proliferation arrest. Here, we use biochemical and genome-wide ...
  • Wright, Roni H.G.; Castellano, Giancarlo; Bonet Martínez, Jaume, 1982-; Le Dily, François; Font Mateu, Jofre, 1977-; Ballaré, Cecilia Julia; Nacht, A. Silvina; Soronellas, Daniel; Oliva Miguel, Baldomero; Beato, Miguel (Cold Spring Harbor Laboratory Press (CSHL Press), 2012)
    Eukaryotic gene regulation implies that transcription factors gain access to genomic information via poorly understood processes involving activation and targeting of kinases, histone-modifying enzymes, and chromatin ...
  • Stik, Grégoire; Vidal, Enrique; Barrero, Mercedes; Cuartero, Sergi; Vila-Casadesús, Maria; Mendieta-Esteban, Julen; Tian, Tian V.; Choi, Jinmi; Berenguer, Clara; Abad, Amaya; Borsari, Beatrice; Le Dily, François; Cramer, Patrick; Martí Renom, Marc A.; Stadhouders, Ralph; Graf, T. (Thomas) (Nature Research, 2020)
    Three-dimensional organization of the genome is important for transcriptional regulation1-7. In mammals, CTCF and the cohesin complex create submegabase structures with elevated internal chromatin contact frequencies, ...
  • Le Dily, François; Vidal, Enrique; Cuartero, Yasmina; Quilez Oliete, Javier; Nacht, A. Silvina; Vicent, Guillermo Pablo; Carbonell-Caballero, Jose; Sharma, Priyanka; Villanueva Cañas, José Luis, 1984-; Ferrari, Roberto; De Llobet, Lara Isabel; Verde, Gaetano; Wright, Roni H.G.; Beato, Miguel (Cold Spring Harbor Laboratory Press (CSHL Press), 2019)
    In breast cancer cells, some topologically associating domains (TADs) behave as hormonal gene regulation units, within which gene transcription is coordinately regulated in response to steroid hormones. Here we further ...
  • Pascual-Reguant, Laura; Blanco, Enrique; Galan, Silvia; Le Dily, François; Cuartero, Yasmina; Serra-Bardenys, Gemma; Di Carlio, Valerio; Iturbide Martínez de Albéniz, Ane, 1989-; Cebrià i Costa, Joan Pau, 1989-; Nonell Mazelón, Lara; 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, ...
  • Ballaré, Cecilia Julia; Castellano, Giancarlo; Gaveglia, Laura; Althammer, Sonja Daniela; González-Vallinas Rostes, Juan, 1983-; Eyras Jiménez, Eduardo; Le Dily, François; Zaurín Quer, Roser; Soronellas, Daniel; Vicent, Guillermo Pablo; Beato, Miguel (Elsevier, 2013)
    In fission yeast cells, Cds1 is the effector kinase of the DNA replication checkpoint. We previously showed that when the DNA replication checkpoint is activated, the repressor Yox1 is phosphorylated and inactivated by ...
  • Vidal Ocabo, Enrique; Le Dily, François; Quilez Oliete, Javier; Stadhouders, Ralph; Cuartero, Yasmina; Graf, T. (Thomas); Martí Renom, Marc A.; Beato, Miguel; Filion, Guillaume (Oxford University Press, 2018)
    The three-dimensional conformation of genomes is an essential component of their biological activity. The advent of the Hi-C technology enabled an unprecedented progress in our understanding of genome structures. However, ...
  • 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 ...
  • Le Dily, François; Beato, Miguel (MDPI, 2018)
    Initial studies showed that ligand-activated hormone receptors act by binding to the proximal promoters of individual target genes. Genome-wide studies have now revealed that regulation of transcription by steroid hormones ...
  • Ferrari, Roberto; De Llobet, Lara Isabel; Di Vona, Chiara, 1981-; Le Dily, François; Vidal Ocabo, Enrique; Lloutas, Antonios; Quilez Oliete, Javier; Jochem, Laura; Cuts, Erin; Dieci, Giorgio; Vannini, Alessandro; Teichmann, Martin; de la Luna, Susana; Beato, Miguel (Elsevier, 2020)
    How repetitive elements, epigenetic modifications, and architectural proteins interact ensuring proper genome expression remains poorly understood. Here, we report regulatory mechanisms unveiling a central role of Alu ...
  • Vara, Covadonga; Paytuví Gallart, Andreu; Cuartero, Yasmina; Le Dily, François; Garcia, Francisca; Salvà-Castro, Judit; Gómez-H, Laura; Julià, Eva; Moutinho, Catia; Aiese Cigliano, Riccardo; Sanseverino, Walter; Fornas Carreño, Oscar; Pendás, Alberto M.; Heyn, Holger; Waters, Paul D.; Marti-Renom, Marc A.; Ruiz Herrera, Aurora (Elsevier, 2019)
    Mammalian gametogenesis involves dramatic and tightly regulated chromatin remodeling, whose regulatory pathways remain largely unexplored. Here, we generate a comprehensive high-resolution structural and functional atlas ...
  • Stadhouders, Ralph; Vidal Ocabo, Enrique; Serra, François; Di Stefano, Bruno, 1984-; Le Dily, François; Quilez Oliete, Javier; Gómez, Antonio; Collombet, Samuel; Berenguer, Clara; Cuartero, Yasmina; Hecht, Jochen; Filion, Guillaume; Beato, Miguel; Martí Renom, Marc A.; Graf, T. (Thomas) (Nature Publishing Group, 2018)
    Chromosomal architecture is known to influence gene expression, yet its role in controlling cell fate remains poorly understood. Reprogramming of somatic cells into pluripotent stem cells (PSCs) by the transcription factors ...
  • Verde, Gaetano; De Llobet, Lara Isabel; Wright, Roni H.G.; Quilez Oliete, Javier; Peiró Sales, Sandra; Le Dily, François; Beato, Miguel (MDPI, 2018)
    Breast cancer prognosis and response to endocrine therapy strongly depends on the expression of the estrogen and progesterone receptors (ER and PR, respectively). Although much is known about ERα gene (ESR1) regulation ...