Browsing by Author "García Pérez, Raquel, 1989-"

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  • Kuderna, Lukas, 1989-; Laayouni, Hafid, 1968-; García Pérez, Raquel, 1989-; Povolotskaya, Inna, 1986-; Serres Armero, Aitor, 1992-; Gómez Garrido, Jèssica; Alioto, Tyler; Navarro i Cuartiellas, Arcadi, 1969-; Bertranpetit, Jaume, 1952-; Marquès i Bonet, Tomàs, 1975- (Oxford University Press, 2017)
    The chimpanzee is arguably the most important species for the study of human origins. A key resource for these studies is a high-quality reference genome assembly; however, as with most mammalian genomes, the current ...
  • Blake, Lauren E.; Roux, Julien; Hernando Herráez, Irene, 1985-; Banovich, Nicholas E.; García Pérez, Raquel, 1989-; Hsiao, Chiaowen Joyce; Eres, Ittai; Cuevas, Claudia; Marquès i Bonet, Tomàs, 1975-; Gilad, Yoav (Cold Spring Harbor Laboratory Press (CSHL Press), 2020)
    Previously published comparative functional genomic data sets from primates using frozen tissue samples, including many data sets from our own group, were often collected and analyzed using nonoptimal study designs and ...
  • Warren, Wesley C.; García Pérez, Raquel, 1989-; Xu, Sen; Lampert, Kathrin P.; Chapolin, Domitille; Stöck, Matthias; Loewe, Laurence; Lu, Yuan; Kuderna, Lukas, 1989-; Minx, Patrick; Montague, Michael J.; Tomlinson, Chad; Hillier, LeDeana W.; Murphy, Daniel N.; Wang, John; Wang, Zhongwei; Macias Garcia, Constantino; Thomas, Gregg C. W.; Volff, Jean-Nicolas; Farias, Fabiana; Aken, Bronwen; Walter, Ronald B.; Pruitt, Kim D.; Marquès i Bonet, Tomàs, 1975-; Hahn, Matthew W.; Kneitz, Susanne; Lynch, Michael; Schartl, Manfred (Nature Publishing Group, 2018)
    The extreme rarity of asexual vertebrates in nature is generally explained by genomic decay due to absence of meiotic recombination, thus leading to extinction of such lineages. We explore features of a vertebrate asexual ...
  • Gokhman, David; García Pérez, Raquel, 1989-; Lizano González, Esther, 1974-; Ferrando-Bernal, Manuel, 1990-; Gelabert Xirinachs, Pere, 1991-; Lalueza Fox, Carles, 1965-; Marquès i Bonet, Tomàs, 1975-; Carmel, Liran (Nature Research, 2020)
    Changes in potential regulatory elements are thought to be key drivers of phenotypic divergence. However, identifying changes to regulatory elements that underlie human-specific traits has proven very challenging. Here, ...
  • Hernando Herráez, Irene, 1985-; García Pérez, Raquel, 1989-; Sharp, Andrew J.; Marquès i Bonet, Tomàs, 1975- (Public Library of Science (PLoS), 2015)
    A fundamental initiative for evolutionary biologists is to understand the molecular basis underlying phenotypic diversity. A long-standing hypothesis states that species-specific traits may be explained by differences in ...
  • García Pérez, Raquel, 1989-; Esteller Cucala, Paula; Mas, Glòria; Lobon Garcia, Irene; Di Carlo, Valerio; Riera, Meritxell; Kuhlwilm, Martin; Navarro i Cuartiellas, Arcadi, 1969-; Blancher, Antoine; Di Croce, Luciano; Gómez Skarmeta, José Luis; Juan, David; Marquès i Bonet, Tomàs, 1975- (Nature Research, 2021)
    Changes in the epigenetic regulation of gene expression have a central role in evolution. Here, we extensively profiled a panel of human, chimpanzee, gorilla, orangutan, and macaque lymphoblastoid cell lines (LCLs), using ...
  • Dobrynin, Pavel; Kuderna, Lukas, 1989-; García Pérez, Raquel, 1989-; de Manuel, Marc; Marquès i Bonet, Tomàs, 1975-; O’Brien, Stephen J. (BioMed Central, 2015)
    BACKGROUND: Patterns of genetic and genomic variance are informative in inferring population history for human, model species and endangered populations. RESULTS: Here the genome sequence of wild-born African cheetahs ...
  • Dobrynin, Pavel; Liu, Shiping; Tamazian, Gaik; Xiong, Zijun; Yurchenko, Andrey A.; Krasheninnikova, Ksenia; Kliver, Sergey; Schmidt-Küntzel, Anne; Koepfli, Klaus-Peter; Johnson, Warren; Kuderna, Lukas, 1989-; García Pérez, Raquel, 1989-; de Manuel, Marc; Godinez, Ricardo; Komissarov, Aleksey; Makunin, Alexey; Brukhin, Vladimir; Qiu, Weilin; Zhou, Long; Li, Fang; Yi, Jian; Driscoll, Carlos; Antunes, Agostinho; Oleksyk, Taras K.; Eizirik, Eduardo; Perelman, Polina; Roelke, Melody; Wildt, David; Diekhans, Mark; Marquès i Bonet, Tomàs, 1975-; Marker, Laurie; Bhak, Jong; Wang, Jun; Zhang, Guojie; O'Brien, Stephen J. (BioMed Central, 2015)
    BACKGROUND: Patterns of genetic and genomic variance are informative in inferring population history for human, model species and endangered populations. RESULTS: Here the genome sequence of wild-born African cheetahs ...
  • Sousa, André M. M.; Zhu, Ying; Raghanti, Mary Ann; Kitchen, Robert R.; Onorati, Marco; Tebbenkamp, Andrew T. N.; Stutz, Bernardo; Meyer, Kyle A.; Li, Mingfeng; Kawasawa, Yuka Imamura; Liu, Fuchen; García Pérez, Raquel, 1989-; Mele, Marta; Carvalho, Tiago Loureiro de, 1987-; Skarica, Mario; Gulden, Forrest O.; Pletikos, Mihovil; Shibata, Akemi; Stephenson, Alexa R.; Edler, Melissa K.; Ely, John J.; Elsworth, John D.; Horvath, Tamas L.; Hof, Patrick R.; Hyde, Thomas M.; Kleinman, Joel E.; Weinberger, Daniel R.; Reimers, Mark; Lifton, Richard P.; Mane, Shrikant M.; Noonan, James P.; State, Matthew W.; Lein, Ed S.; Knowles, James A.; Marquès i Bonet, Tomàs, 1975-; Sherwood, Chet C.; Gerstein, Mark B.; Sestan, Nenad (American Association for the Advancement of Science (AAAS), 2017)
    To better understand the molecular and cellular differences in brain organization between human and nonhuman primates, we performed transcriptome sequencing of 16 regions of adult human, chimpanzee, and macaque brains. ...
  • Santus, Luisa; Sopena Rios, Maria; García Pérez, Raquel, 1989-; Lin, Aaron E.; Adams, Gordon C.; Barnes, Kayla G.; Siddle, Katherine J.; Wohl, Shirlee; Reverter, Ferran; Rinn, John L.; Bennett, Richard S.; Hensley, Lisa E.; Sabeti, Pardis C.; Melé Messeguer, Marta, 1982- (Nature Research, 2023)
    Long non-coding RNAs (lncRNAs) are involved in numerous biological processes and are pivotal mediators of the immune response, yet little is known about their properties at the single-cell level. Here, we generate a ...
  • Lobon Garcia, Irene; Solís Moruno, Manuel, 1993-; Juan, David; Muhaisen, Ashraf; Abascal, Federico; Esteller Cucala, Paula; García Pérez, Raquel, 1989-; Martí, Maria Josep; Tolosa, Eduard; Ávila, Jesús; Rahbari, Raheleh; Marquès i Bonet, Tomàs, 1975-; Casals López, Ferran; Soriano, Eduardo (Frontiers, 2022)
    The role of somatic mutations in complex diseases, including neurodevelopmental and neurodegenerative disorders, is becoming increasingly clear. However, to date, no study has shown their relation to Parkinson disease's ...
  • Warren, Wesley C.; García Pérez, Raquel, 1989-; Marquès i Bonet, Tomàs, 1975-; Freimer, Nelson B. (Cold Spring Harbor Laboratory Press (CSHL Press), 2015)
    We describe a genome reference of the African green monkey or vervet (Chlorocebus aethiops). This member of the Old World monkey (OWM) superfamily is uniquely valuable for genetic investigations of simian immunodeficiency ...
  • García Pérez, Raquel, 1989-; Ramirez, Jose Miguel; Ripoll Cladellas, Aida; Chazarra-Gil, Ruben; Oliveros, Winona; Soldatkina, Oleksandra; Bosio, Mattia; Rognon, Paul Joris; Capella Gutiérrez, Salvador Jesús, 1985-; Calvo, Miquel (Calvo Llorca); Reverter, Ferran; Guigó Serra, Roderic; Aguet, François; Ferreira, Pedro G.; Ardlie, Kristin G.; Melé Messeguer, Marta, 1982- (Elsevier, 2022)
    Understanding the consequences of individual transcriptome variation is fundamental to deciphering human biology and disease. We implement a statistical framework to quantify the contributions of 21 individual traits as ...
  • Ferrández Peral, Luis, 1991-; Zhan, Xiaoyu; Zhan, Xiaoyu; Alvarez-Estape, Marina; Chiva, Cristina; Esteller Cucala, Paula; García Pérez, Raquel, 1989-; Julià, Eva; Lizano González, Esther, 1974-; Fornas Carreño, Oscar; Sabidó Aguadé, Eduard, 1981-; Li, Qiye; Marquès i Bonet, Tomàs, 1975-; Juan, David; Zhang, Guojie (Cold Spring Harbor Laboratory Press (CSHL Press), 2022)
    Transcriptomic diversity greatly contributes to the fundamentals of disease, lineage-specific biology, and environmental adaptation. However, much of the actual isoform repertoire contributing to shaping primate evolution ...

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