Browsing by Author "Blanco, Enrique"

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  • A computational pipeline to learn gene expression predictive models from epigenetic information at enhancers or promoters
    González Ramírez, Mar, 1991-; Blanco, Enrique; Di Croce, Luciano (Elsevier, 2023)
    Here, we present a computational pipeline to obtain quantitative models that characterize the relationship of gene expression with the epigenetic marking at enhancers or promoters in mouse embryonic stem cells. Our protocol ...
  • ABS: a database of Annotated regulatory Binding Sites from orthologous promoters
    Blanco, Enrique; Farré, Domènec; Albà Soler, Mar; Messeguer, Xavier; Guigó Serra, Roderic (Oxford University Press, 2006)
    Information about the genomic coordinates and the sequence of experimentally identified transcription factor binding sites is found scattered under a variety of diverse formats. The availability of standard collections of ...
  • Absence of canonical marks of active chromatin in developmentally regulated genes
    Pérez-Lluch, Sílvia; Blanco, Enrique; Tilgner, Hagen, 1980-; Curado, Joao; Ruiz-Romero, Marina; Corominas Guiu, Montserrat; Guigó Serra, Roderic (Nature Research, 2015)
    The interplay of active and repressive histone modifications is assumed to have a key role in the regulation of gene expression. In contrast to this generally accepted view, we show that the transcription of genes temporally ...
  • Cabut/dTIEG associates with the transcription factor Yorkie for growth control
    Ruíz Romero, Marina; Blanco, Enrique; Paricio, Nuria; Serras Rigalt, Florenci; Corominas Guiu, Montserrat (EMBO Press, 2015)
    The Drosophila transcription factor Cabut/dTIEG (Cbt) is a growth regulator, whose expression is modulated by different stimuli. Here, we determine Cbt association with chromatin and identify Yorkie (Yki), the transcriptional ...
  • Chromatin capture links the metabolic enzyme AHCY to stem cell proliferation
    Aranda Aragón, Sergio; Alcaine Colet, Anna, 1992-; Blanco, Enrique; Borràs, Eva; Caillot, Claire; Sabidó Aguadé, Eduard, 1981-; Di Croce, Luciano (American Association for the Advancement of Science (AAAS), 2019)
    Profiling the chromatin-bound proteome (chromatome) in a simple, direct, and reliable manner might be key to uncovering the role of yet uncharacterized chromatin factors in physiology and disease. Here, we have designed ...
  • Conserved chromosomal clustering of genes governed by chromatin regulators in Drosophila
    Guigó Serra, Roderic; Blanco, Enrique; Pignatelli, Miguel; Punset, Adrià; Pérez-Lluch, Sílvia; Serras Rigalt, Florenci; Corominas Guiu, Montserrat (BioMed Central, 2008)
    BACKGROUND: The trithorax group (trxG) and Polycomb group (PcG) proteins are responsible for the maintenance of stable transcriptional patterns of many developmental regulators. They bind to specific regions of DNA and ...
  • Differential contribution to gene expression prediction of histone modifications at enhancers or promoters
    González Ramírez, Mar, 1991-; Ballaré, Cecilia Julia; Mugianesi, Francesca; Beringer, Malte; Santanach Buxaderas, Alexandra, 1988-; Blanco, Enrique; Di Croce, Luciano (Public Library of Science (PLoS), 2021)
    The ChIP-seq signal of histone modifications at promoters is a good predictor of gene expression in different cellular contexts, but whether this is also true at enhancers is not clear. To address this issue, we develop ...
  • Dnmt3a and dnmt3b associate with enhancers to regulate human epidermal stem cell homeostasis
    Rinaldi, Lorenzo, 1986-; Datta, Debayan; Serrat, Judit; Morey Ramonell, Lluís; Solanas, Guiomar; Avgustinova, Alexandra; Blanco, Enrique; Pons, José Ignacio; Matallanas, David; Kriegsheim, Alex von; Di Croce, Luciano; Aznar Benitah, Salvador (Elsevier, 2016)
    The genome-wide localization and function of endogenous Dnmt3a and Dnmt3b in adult stem cells are unknown. Here, we show that in human epidermal stem cells, the two proteins bind in a histone H3K36me3-dependent manner to ...
  • GATA2 promotes hematopoietic development and represses cardiac differentiation of human mesoderm
    Castaño, Julio; Aranda Aragón, Sergio; Blanco, Enrique; Mereu, Elisabetta; Heyn, Holger; Di Croce, Luciano; Giorgetti, Alessandra (Elsevier, 2019)
    In vertebrates, GATA2 is a master regulator of hematopoiesis and is expressed throughout embryo development and in adult life. Although the essential role of GATA2 in mouse hematopoiesis is well established, its involvement ...
  • GeneID in "Drosophila"
    Parra Farré, Genís; Blanco, Enrique; Guigó Serra, Roderic (Cold Spring Harbor Laboratory Press-CSHL Press, 2000)
    GeneID is a program to predict genes in anonymous genomic sequences designed with a hierarchical structure. In the first step, splice sites, and start and stop codons are predicted and scored along the sequence using ...
  • In vivo temporal resolution of acute promyelocytic leukemia progression reveals a role of Klf4 in suppressing early leukemic transformation
    Mas, Glòria; Santoro, Fabio; Blanco, Enrique; Gamarra Figueroa, Gianni Paolo; Le Dily, François; Frigè, Gianmaria; Vidal, Enrique; Mugianesi, Francesca; Ballaré, Cecilia Julia; Gutiérrez, Arantxa; Sparavier, Aleksandra; Marti-Renom, Marc A.; Minucci, Saverio; Di Croce, Luciano (Cold Spring Harbor Laboratory Press (CSHL Press), 2022)
    Genome organization plays a pivotal role in transcription, but how transcription factors (TFs) rewire the structure of the genome to initiate and maintain the programs that lead to oncogenic transformation remains poorly ...
  • 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 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, ...
  • Multiple non-collinear TF-map alignments of promoter regions
    Blanco, Enrique; Guigó Serra, Roderic; Messeguer, Xavier (BioMed Central, 2007)
    Background: The analysis of the promoter sequence of genes with similar expression patterns is/na basic tool to annotate common regulatory elements. Multiple sequence alignments are on the/nbasis of most comparative ...
  • PHF19 mediated regulation of proliferation and invasiveness in prostate cancer cells
    Jain, Payal, 1986-; Ballaré, Cecilia Julia; Blanco, Enrique; Vizán, Pedro; Di Croce, Luciano (eLife, 2020)
    The Polycomb-like protein PHF19/PCL3 associates with PRC2 and mediates its recruitment to chromatin in embryonic stem cells. PHF19 is also overexpressed in many cancers. However, neither PHF19 targets nor misregulated ...
  • Polycomb factor PHF19 controls cell growth and differentiation toward erythroid pathway in chronic myeloid leukemia cells
    García Montolío, Marc, 1991-; Ballaré, Cecilia Julia; Blanco, Enrique; Gutiérrez, Arantxa; Aranda Aragón, Sergio; Gómez, Antonio; Kok, Chung H.; Yeung, David T.; Hughes, Timothy P.; Vizán, Pedro; Di Croce, Luciano (Frontiers Media, 2021)
    Polycomb group (PcG) of proteins are a group of highly conserved epigenetic regulators involved in many biological functions, such as embryonic development, cell proliferation, and adult stem cell determination. PHD finger ...
  • Polycomb regulates mesoderm cell fate-specification in embryonic stem cells through activation and repression mechanisms
    Morey Ramonell, Lluís; Santanach Buxaderas, Alexandra, 1988-; Blanco, Enrique; Aloia, Luigi; Nora, Elphège P.; Bruneau, Benoit G.; Di Croce, Luciano (Elsevier, 2015)
    Polycomb complexes (PRC1 and PRC2) are essential regulators of epigenetic gene silencing in embryonic and adult stem cells. Emerging evidence suggests that the core subunit composition regulates distinct biological processes, ...
  • Productive visualization of high-throughput sequencing data using the SeqCode open portable platform
    Blanco, Enrique; González Ramírez, Mar, 1991-; Di Croce, Luciano (Nature Research, 2021)
    Large-scale sequencing techniques to chart genomes are entirely consolidated. Stable computational methods to perform primary tasks such as quality control, read mapping, peak calling, and counting are likewise available. ...
  • RING1B recruits EWSR1-FLI1 and cooperates in the remodeling of chromatin necessary for Ewing sarcoma tumorigenesis
    Sánchez Molina, Sara; Figuerola, Elisabeth; Blanco, Enrique; Sánchez Jiménez, María; Táboas, Pablo; Gómez, Soledad; Ballaré, Cecilia Julia; García-Domínguez, Daniel J.; Prada, Estela; Hontecillas-Prieto, Lourdes; Carcaboso, Angel M.; Tirado, Oscar M.; Hernández Muñoz, María Inmaculada; Alava, Enrique de; Lavarino, Cinzia; Di Croce, Luciano; Mora, Jaume (American Association for the Advancement of Science (AAAS), 2020)
    Ewing sarcoma (EwS) is an aggressive tumor that affects adolescents and young adults. EwS is defined by a chromosomal translocation, EWSR1-FLI1 being the most common, that causes genome reprogramming through remodeling of ...
  • SpikChIP: a novel computational methodology to compare multiple ChIP-seq using spike-in chromatin
    Blanco, Enrique; Di Croce, Luciano; Aranda Aragón, Sergio (Oxford University Press, 2021)
    In order to evaluate cell- and disease-specific changes in the interacting strength of chromatin targets, ChIP-seq signal across multiple conditions must undergo robust normalization. However, this is not possible using ...
  • Targeting lymphoid-derived IL-17 signaling to delay skin aging
    Solá, Paloma; Mereu, Elisabetta; Bonjoch, Júlia; Casado-Peláez, Marta; Prats, Neus; Aguilera, Mònica; Reina García, Óscar, 1976-; Blanco, Enrique; Esteller, Manel; Di Croce, Luciano; Heyn, Holger; Solanas, Guiomar; Aznar Benitah, Salvador (Nature Research, 2023)
    Skin aging is characterized by structural and functional changes that contribute to age-associated frailty. This probably depends on synergy between alterations in the local niche and stem cell-intrinsic changes, underscored ...