Browsing by Author "Santpere Baró, Gabriel, 1981-"

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  • Accelerated exon evolution within primate segmental duplications
    Lorente-Galdós, Belén, 1981-; Bleyhl, Jonathan; Santpere Baró, Gabriel, 1981-; Vives, Laura; Ramírez, Oscar; Hernández Rodríguez, Jéssica, 1983-; Anglada Busquets, Roger; Cooper, Gregory M.; Navarro i Cuartiellas, Arcadi, 1969-; Eichler, Evan E.; Marquès i Bonet, Tomàs, 1975- (BioMed Central, 2013)
    BACKGROUND: The identification of signatures of natural selection has long been used as an approach to understanding the unique features of any given species. Genes within segmental duplications are overlooked in most ...
  • Analysis of five gene sets in chimpanzees suggests decoupling between the action of selection on protein-coding and on noncoding elements
    Santpere Baró, Gabriel, 1981-; Carnero-Montoro, Elena, 1985-; Petit, Natalia; Serra, François; Hvilsom, Christina; Rambla de Argila, Jordi; Heredia Genestar, José María, 1985-; Halligan, Daniel L.; Dopazo, Hernán; Navarro i Cuartiellas, Arcadi, 1969-; Bosch Fusté, Elena (Oxford University Press, 2015)
    We set out to investigate potential differences and similarities between the selective forces acting upon the coding and noncoding regions of five different sets of genes defined according to functional and evolutionary ...
  • Brain transcriptomic profiling reveals common alterations across neurodegenerative and psychiatric disorders
    Sadeghi, Iman; Gispert López, Juan Domingo; Palumbo, Emilio; Muñoz-Aguirre, Manuel; Wucher, Valentin; D'Argenio, Valeria; Santpere Baró, Gabriel, 1981-; Navarro i Cuartiellas, Arcadi, 1969-; Guigó Serra, Roderic; Vilor Tejedor, Natàlia, 1988- (Elsevier, 2022)
    Neurodegenerative and neuropsychiatric disorders (ND-NPs) are multifactorial, polygenic and complex behavioral phenotypes caused by brain abnormalities. Large-scale collaborative efforts have tried to identify the genetic ...
  • Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European
    Olalde Marquínez, Íñigo, 1987-; Sánchez Quinto, Federico A, 1985-; Santpere Baró, Gabriel, 1981-; Rodríguez Pérez, Juan Antonio, 1985-; Quilez Oliete, Javier; Ramírez, Oscar; Marigorta, Urko M.; Fernández Callejo, Marcos; Marquès i Bonet, Tomàs, 1975-; Navarro i Cuartiellas, Arcadi, 1969-; Lalueza Fox, Carles, 1965- (Nature Research, 2014)
    Ancient genomic sequences have started to reveal the origin and the demographic impact of farmers from the Neolithic period spreading into Europe. The adoption of farming, stock breeding and sedentary societies during the ...
  • Differences in molecular evolutionary rates among microRNAs in the human and chimpanzee genomes
    Santpere Baró, Gabriel, 1981-; López Valenzuela, María, 1982-; Petit-Marty, Natalia; Navarro i Cuartiellas, Arcadi, 1969-; Espinosa Parrilla, Yolanda, 1971- (BioMed Central, 2016)
    Background: The rise of the primate lineage is accompanied by an outstanding emergence of microRNAs, small non-coding RNAs with a prominent role in gene regulation. In spite of their biological importance little is known ...
  • Expanding the geographic characterisation of epstein-barr virus variation through gene-based approaches
    Telford, Marco, 1984-; Hughes, David; Juan, David; Stoneking, Mark; Navarro i Cuartiellas, Arcadi, 1969-; Santpere Baró, Gabriel, 1981- (MDPI, 2020)
    The Epstein-Barr Virus (EBV) infects the vast majority of human individuals worldwide (~90%) and is associated with several diseases, including different types of cancer and multiple sclerosis, which show wide variation ...
  • Genetic factors affecting EBV copy number in lymphoblastoid cell lines derived from the 1000 Genome Project samples
    Mandage, Rajendra, 1984-; Telford, Marco, 1984-; Rodríguez, Juan Antonio; Farré, Xavier; Layouni, Hafid; Marigorta, Urko M.; Cundiff, Caitlin; Heredia Genestar, José María, 1985-; Navarro i Cuartiellas, Arcadi, 1969-; Santpere Baró, Gabriel, 1981- (Public Library of Science (PLoS), 2017)
    Epstein-Barr virus (EBV), human herpes virus 4, has been classically associated with infectious mononucleosis, multiple sclerosis and several types of cancers. Many of these diseases show marked geographical differences ...
  • Genome-wide analysis of wild-type epstein-barr virus genomes derived from healthy individuals of the 1000 genomes project
    Santpere Baró, Gabriel, 1981-; Darre, Fleur; Blanco, Soledad; Alcami, Antonio; Villoslada, Pablo; Albà Soler, Mar; Navarro i Cuartiellas, Arcadi, 1969- (Oxford University Press, 2014)
    Most people in the world (∼90%) are infected by the Epstein–Barr virus (EBV), which establishes itself permanently in B cells. Infection by EBV is related to a number of diseases including infectious mononucleosis, multiple ...
  • Great ape genetic diversity and population history
    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 ...
  • Human herpesvirus diversity is altered in HLA class I binding peptides
    Palmer, William H.; Telford, Marco, 1984-; Navarro i Cuartiellas, Arcadi, 1969-; Santpere Baró, Gabriel, 1981-; Norman, Paul J. (National Academy of Sciences, 2022)
    Herpesviruses are ubiquitous, genetically diverse DNA viruses, with long-term presence in humans associated with infrequent but significant pathology. Human leukocyte antigen (HLA) class I presents intracellularly derived ...
  • Mechanisms of binding specificity among bHLH transcription factors
    de Martin, Xabier; Sodaei, Reza, 1988-; Santpere Baró, Gabriel, 1981- (MDPI, 2021)
    The transcriptome of every cell is orchestrated by the complex network of interaction between transcription factors (TFs) and their binding sites on DNA. Disruption of this network can result in many forms of organism ...
  • Natural selection in the great apes
    Cagan, Alexander; Theunert, Christoph; Laayouni, Hafid, 1968-; Santpere Baró, Gabriel, 1981-; Pybus Oliveras, Marc, 1985-; Casals López, Ferran; Prüfer, Kay; Navarro i Cuartiellas, Arcadi, 1969-; Marquès i Bonet, Tomàs, 1975-; Bertranpetit, Jaume, 1952-; Andrés Morán, Aida, 1976- (Oxford University Press, 2016)
    Natural selection is crucial for the adaptation of populations to their environments. Here, we present the first global study of natural selection in the Hominidae (humans and great apes) based on genome-wide information ...
  • Phylogenomic analyses of the genus drosophila reveals genomic signals of climate adaptation
    Li, Fang; Santpere Baró, Gabriel, 1981-; Zhang, Guojie (Wiley, 2022)
    Many Drosophila species differ widely in their distributions and climate niches, making them excellent subjects for evolutionary genomic studies. Here, we have developed a database of high-quality assemblies for 46 Drosophila ...
  • Similar genomic proportions of copy number variation within gray wolves and modern dog breeds inferred from whole genome sequencing
    Serres Armero, Aitor, 1992-; Povolotskaya, Inna, 1986-; Quilez Oliete, Javier; Ramírez, Oscar; Santpere Baró, Gabriel, 1981-; Kuderna, Lukas F.K.; Hernández Rodríguez, Jéssica, 1983-; Fernández Callejo, Marcos; Gómez Sánchez, Daniel; Freedman, Adam H.; Fan, Zhenxin; Novembre, John; Navarro i Cuartiellas, Arcadi, 1969-; Boyko, Adam; Wayne, Robert K.; Vilà, Carles; Lorente-Galdós, Belén, 1981-; Marquès i Bonet, Tomàs, 1975- (BioMed Central, 2017)
    BACKGROUND: Whole genome re-sequencing data from dogs and wolves are now commonly used to study how natural and artificial selection have shaped the patterns of genetic diversity. Single nucleotide polymorphisms, microsatellites ...
  • Spatiotemporal transcriptomic divergence across human and macaque brain development
    Zhu, Ying; Sousa, André M. M.; Gao, Tianliuyun; Skarica, Mario; Li, Mingfeng; Santpere Baró, Gabriel, 1981-; Esteller Cucala, Paula; Juan, David; Ferrández Peral, Luis, 1991-; Gulden, Forrest O.; Yang, Mo; Miller, Daniel J.; Marquès i Bonet, Tomàs, 1975-; Kawasawa, Yuka Imamura; Zhao, Hongyu; Sestan, Nenad (American Association for the Advancement of Science (AAAS), 2018)
    Human nervous system development is an intricate and protracted process that requires precise spatiotemporal transcriptional regulation. We generated tissue-level and single-cell transcriptomic data from up to 16 brain ...
  • The presence of human herpesvirus 6 in the brain in health and disease
    Santpere Baró, Gabriel, 1981-; Telford, Marco, 1984-; Andrés Benito, Pol; Navarro i Cuartiellas, Arcadi, 1969-; Ferrer, Isidre (MDPI, 2020)
    The human herpesvirus 6 (HHV-6) -A and -B are two dsDNA beta-herpesviruses infectingalmost the entire worldwide population. These viruses have been implicated in multipleneurological conditions in individuals of various ...
  • Transcriptomic taxonomy and neurogenic trajectories of adult human, macaque, and pig hippocampal and entorhinal cells
    Franjic, Daniel; Santpere Baró, Gabriel, 1981-; Sestan, Nenad (Elsevier, 2022)
    The hippocampal-entorhinal system supports cognitive functions, has lifelong neurogenic capabilities in many species, and is selectively vulnerable to Alzheimer's disease. To investigate neurogenic potential and cellular ...
  • Whole genome diversity of inherited chromosomally integrated HHV-6 derived from healthy individuals of diverse geographic origin
    Telford, Marco, 1984-; Navarro i Cuartiellas, Arcadi, 1969-; Santpere Baró, Gabriel, 1981- (Nature Publishing Group, 2018)
    Human herpesviruses 6-A and -B (HHV-6A, HHV-6B) are ubiquitous in human populations worldwide. These viruses have been associated with several diseases such as multiple sclerosis, Hodgkin's lymphoma or encephalitis. Despite ...
  • Whole-genome and RNA sequencing reveal variation and transcriptomic coordination in the developing human prefrontal cortex
    Werling, Donna M.; Santpere Baró, Gabriel, 1981-; Sestan, Nenad (Elsevier, 2020)
    Gene expression levels vary across developmental stage, cell type, and region in the brain. Genomic variants also contribute to the variation in expression, and some neuropsychiatric disorder loci may exert their effects ...
  • Whole-genome sequence analysis of a Pan African set of samples reveals archaic gene flow from an extinct basal population of modern humans into sub-Saharan populations
    Lorente-Galdós, Belén, 1981-; Lao Grueso, Oscar, 1976-; Serra Vidal, Gerard, 1989-; Santpere Baró, Gabriel, 1981-; Kuderna, Lukas F.K.; Arauna, Lara R; Fadhlaoui-Zid, Karima; Pimenoff, Ville N.; Soodyall, Himla; Zalloua, Pierre A.; Marquès i Bonet, Tomàs, 1975-; Comas, David, 1969- (BioMed Central, 2019)
    Background: Population demography and gene flow among African groups, as well as the putative archaic introgression of ancient hominins, have been poorly explored at the genome level. Results: Here, we examine 15 African ...