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Browsing Center for Genomic Regulation (CRG) by Author "Dabad, Marc"

Browsing Center for Genomic Regulation (CRG) by Author "Dabad, Marc"

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  • Esteve-Codina, Anna; Arpí Llucià, Oriol; Martínez-García, Maria; Pineda, Estela; Mallo, Mar; Gut, Marta; Carrato, Cristina; Rovira Guerín, Ana; Lopez, Raquel; Tortosa, Avelina; Dabad, Marc; del Barco, Sonia; Heath, Simon; Bagué, Silvia; Ribalta, Teresa; Alameda Quitllet, Francisco; de la Iglesia, Nuria; Balaña, Carmen; GLIOCAT Group (Public Library of Science (PLoS), 2017)
    The molecular classification of glioblastoma (GBM) based on gene expression might better explain outcome and response to treatment than clinical factors. Whole transcriptome sequencing using next-generation sequencing ...
  • Alioto, Tyler; Derdak, Sophia; Ribeca, Paolo; Castro Giner, Francesc; Beltran, Sergi; Raineri, Emanuele; Dabad, Marc; Heath, Simon; Gut, Marta; Gut, Ivo Glynne (Nature Research, 2015)
    As whole-genome sequencing for cancer genome analysis becomes a clinical tool, a full understanding of the variables affecting sequencing analysis output is required. Here using tumour-normal sample pairs from two different ...
  • Keraite, Ieva; Becker, Philipp; Canevazzi, Davide; Frias-López, Cristina; Dabad, Marc; Tonda, Raúl; Paramonov, Ida; Ingham, Matthew; Brun-Heath, Isabelle; Leno, Jordi; Abulí, Anna; García-Arumí, Elena; Heath, Simon; Gut, Marta; Gut, Ivo Glynne (Nature Research, 2022)
    Methods to reconstruct the mitochondrial DNA (mtDNA) sequence using short-read sequencing come with an inherent bias due to amplification and mapping. They can fail to determine the phase of variants, to capture multiple ...
  • Coves, Xavier; Bravo, Marc; Huedo, Pol; Conchillo-Solé, Òscar; Gómez, Andromeda-Celeste; Esteve-Codina, Anna; Dabad, Marc; Gut, Marta; Daura, Xavier; Yero, Daniel; Gibert, Isidre (American Society for Microbiology, 2023)
    Stenotrophomonas maltophilia is an environmental bacterium as well as an emerging opportunistic multidrug-resistant pathogen. They use the endogenous diffusible signal factor (DSF) quorum sensing (QS) system to coordinate ...
  • Núñez, Ana I.; Esteve-Codina, Anna; Gómez-Garrido, Jèssica; Brustolin, Marco; Talavera, Sandra; Berdugo, Miguel; Dabad, Marc; Alioto, Tyler; Bensaid, Albert; Busquets, Núria (Public Library of Science (PLoS), 2020)
    Rift Valley fever phlebovirus (RVFV) causes an emerging zoonotic disease and is mainly transmitted by Culex and Aedes mosquitoes. While Aedes aegypti-dengue virus (DENV) is the most studied model, less is known about the ...
  • Bosch-Camós, Laia; Alonso, Uxía; Esteve-Codina, Anna; Chang, Chia-Yu; Martín-Mur, Beatriz; Accensi, Francesc; Muñoz, Marta; Navas, María J.; Dabad, Marc; Vidal, Enric; Pina-Pedrero, Sonia; Pleguezuelos, Patricia; Caratù, Ginevra; Salas, María L.; Liu, Lihong; Bataklieva, Stanimira; Gavrilov, Boris; Rodríguez, Fernando; Argilaguet Marqués, Jordi, 1977- (Public Library of Science (PLoS), 2022)
    African swine fever virus (ASFV) is causing a worldwide pandemic affecting the porcine industry and leading to important global economic consequences. The virus causes a highly lethal hemorrhagic disease in wild boars and ...
  • Raineri, Emanuele; Alberola i Pla, Mariona; Dabad, Marc; Heath, Simon (Oxford University Press, 2023)
    Summary: Nanopore reads encode information on the methylation status of cytosines in CpG dinucleotides. The length of the reads makes it comparatively easy to look at patterns consisting of multiple loci; here, we exploit ...
  • Cobo-Simón, Irene; Gómez-Garrido, Jèssica; Esteve-Codina, Anna; Dabad, Marc; Alioto, Tyler; Maloof, Julin N.; Méndez-Cea, Belén; Seco, José Ignacio; Linares, Juan Carlos; Gallego, Francisco Javier (Frontiers, 2023)
    Introduction: Understanding the adaptive capacity to current climate change of drought-sensitive tree species is mandatory, given their limited prospect of migration and adaptation as long-lived, sessile organisms. Knowledge ...
  • Giménez Xavier, Pol; Pros, Eva; Aza, Ana; Moran, Sebastian; Tonda, Raúl; Esteve-Codina, Anna; Dabad, Marc; Sánchez Céspedes, Montse (Impact Journals, 2018)
    The development of acquired resistance (AR) to tyrosine kinase inhibitors (TKIs) of FGFR1 activation is currently not well understood. To gain a deeper insight into this matter in lung cancer, we used the FGFR1-amplified ...
  • Bonet, Jose; Chen, Mandi; Dabad, Marc; Heath, Simon; Gonzalez-Perez, Abel; López Bigas, Núria; Lagergren, Jens (Oxford University Press, 2021)
    Motivation: DNA Methylation plays a key role in a variety of biological processes. Recently, Nanopore long-read sequencing has enabled direct detection of these modifications. As a consequence, a range of computational ...
  • Lobón, Irene; Tucci, Serena; de Manuel, Marc; Ghirotto, Silvia; Benazzo, Andrea; Prado Martínez, Javier, 1987-; Lorente-Galdós, Belén, 1981-; Nam, Kiwoong; Dabad, Marc; Hernández Rodríguez, Jéssica, 1983-; Comas, David, 1969-; Navarro i Cuartiellas, Arcadi, 1969-; Schierup, Mikkel H.; Andrés Morán, Aida, 1976-; Barbujani, Guido; Hvilsom, Christina; Marquès i Bonet, Tomàs, 1975- (Oxford University Press, 2016)
    The genus Pan is the closest genus to our own and it includes two species, Pan paniscus (bonobos) and Pan troglodytes (chimpanzees). The later is constituted by four subspecies, all highly endangered. The study of the Pan ...
  • Castro-Arnau, Júlia; Chauvigné, François; Gómez-Garrido, Jèssica; Esteve-Codina, Anna; Dabad, Marc; Alioto, Tyler; Finn, Roderick Nigel; Cerdà, Joan (Nature Research, 2022)
    In non-mammalian vertebrates, the molecular mechanisms involved in the transformation of haploid germ cells (HGCs) into spermatozoa (spermiogenesis) are largely unknown. Here, we investigated this process in the marine ...
  • Hernandez, Inmaculada; Dhiman, Heena; Klanert, Gerald; Jadhav, Vaibhav; Auer, Norbert; Hanscho, Michael; Baumann, Martina; Esteve-Codina, Anna; Dabad, Marc; Gómez, Jessica; Alioto, Tyler; Merkel, Angelika; Raineri, Emanuele; Heath, Simon; Rico, Daniel; Borth, Nicole (Wiley, 2019)
    The existence of dynamic cellular phenotypes in changing environmental conditions is of major interest for cell biologists who aim to understand the mechanism and sequence of regulation of gene expression. In the context ...
  • Esteve-Codina, Anna; Soler Artigas, María; Dabad, Marc; Fernández Callejo, Marcos; Griebel, Thasso; Heath, Simon; Gut, Ivo Glynne; Ziegler-Heitbrock, Loems (Nature Research, 2021)
    Chronic obstructive pulmonary disease (COPD) is a destructive inflammatory disease and the genes expressed within the lung are crucial to its pathophysiology. We have determined the RNAseq transcriptome of bronchial brush ...
  • Prado Martínez, Javier, 1987-; Lorente-Galdós, Belén, 1981-; Santpere Baró, Gabriel, 1981-; Casals López, Ferran; Laayouni, Hafid, 1968-; Hernández Rodríguez, Jéssica, 1983-; Hernando Herráez, Irene, 1985-; Pybus Oliveras, Marc, 1985-; Petit, Natalia; Fernández Callejo, Marcos; Dabad, Marc; Carvalho, Tiago Loureiro de, 1987-; Melé Messeguer, Marta, 1982-; Comas, David, 1969-; Navarro i Cuartiellas, Arcadi, 1969-; Bertranpetit, Jaume, 1952-; Marquès i Bonet, Tomàs, 1975- (Nature Publishing Group, 2013)
    Most great ape genetic variation remains uncharacterized1, 2; however, its study is critical for understanding population history3, 4, 5, 6, recombination7, selection8 and susceptibility to disease9, 10. Here we sequence ...
  • Izquierdo Bouldstridge, Andrea; Bustillos, Alberto; Bonet-Costa, Carles; Aribau-Miralbés, Patricia; García-Gomis, Daniel; Dabad, Marc; Esteve-Codina, Anna; Pascual-Reguant, Laura, 1990-; Peiró Sales, Sandra; Esteller, Manel; Murtha, Matthew; Millán Ariño, Lluís, 1984-; Jordan Vallès, Albert (Oxford University Press, 2017)
    Histone H1 has seven variants in human somatic cells and contributes to chromatin compaction and transcriptional regulation. Knock-down (KD) of each H1 variant in breast cancer cells results in altered gene expression and ...
  • Hernandez, Ainhoa; Muñoz-Mármol, Ana M.; Esteve-Codina, Anna; Alameda Quitllet, Francisco; Carrato, Cristina; Pineda, Estela; Arpí Llucià, Oriol; Martinez-García, Maria; Mallo, Mar; Gut, Marta; Barco Berrón, Sonia del; Gallego, Oscar; Dabad, Marc; Mesia, Carlos; Bellosillo Paricio, Beatriz; Domenech, Marta; Vidal, Noemí; Aldecoa, Iban; Iglesia, Nuria de la; Balana, Carmen (Nature Research, 2022)
    RNA-Sequencing (RNA-Seq) can identify gene fusions in tumors, but not all these fusions have functional consequences. Using multiple data bases, we have performed an in silico analysis of fusions detected by RNA-Seq in ...
  • Chaves Pozo, Elena; Valero, Yulema; Esteve-Codina, Anna; Gómez Garrido, Jèssica; Dabad, Marc; Alioto, Tyler; Meseguer, José; Esteban, María Ángeles; Cuesta, Alberto (Nature Publishing Group, 2017)
    Nervous necrosis virus (NNV) causes high mortalities in several marine species. We aimed to evaluate the innate cell-mediated cytotoxic (CMC) activity of head-kidney leucocytes (HKLs) isolated from naïve European sea bass ...
  • Piedra Aguilera, Álvaro; Jiao, Chen; Luna, Ana P.; Villanueva, Francisco; Dabad, Marc; Esteve-Codina, Anna; Díaz Pendón, Juan Antonio; Fei, Zhangjun; Bejarano, Eduardo R.; Castillo, Araceli G. (Nature Research, 2019)
    Geminiviruses are plant ssDNA viruses that replicate through dsDNA intermediates and form minichromosomes which carry the same epigenetic marks as the host chromatin. During the infection, geminiviruses are targets of the ...
  • Esteve-Codina, Anna; Alameda Quitllet, Francisco; Arpí Llucià, Oriol; Gut, Marta; Dabad, Marc; Balana, Carmen (American Association for Cancer Research (AACR), 2021)
    Purpose: Glioblastoma is the most aggressive brain tumor in adults and has few therapeutic options. The study of molecular subtype classifications may lead to improved prognostic classification and identification of new ...

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