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23 p, 7.8 MB |
Deep learning applications in single-cell genomics and transcriptomics data analysis
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Erfanian, Nafiseh (Birjand University of Medical Sciences, Birjand, Iran) ;
Heydari, A.Ali (University of California, USA) ;
Feriz, Adib Miraki (Birjand University of Medical Sciences, Birjand, Iran) ;
Iañez, Pablo (Institut Germans Trias i Pujol. Institut de Recerca contra la Leucèmia Josep Carreras) ;
Derakhshani, Afshin (University of Calgary, Canada) ;
Ghasemigol, Mohammad (University of North Dakota, USA) ;
Farahpour, Mohsen (University of Birjand, Iran) ;
Razavi, Seyyed Mohammad (University of Birjand, Iran) ;
Nasseri, Saeed (Birjand University of Medical Sciences, Iran) ;
Safarpour, Hossein (Birjand University of Medical Sciences, Iran) ;
Sahebkar, Amirhossein (Mashhad University of Medical Sciences, Mashhad, Iran)
Traditional bulk sequencing methods are limited to measuring the average signal in a group of cells, potentially masking heterogeneity, and rare populations. The single-cell resolution, however, enhances our understanding of complex biological systems and diseases, such as cancer, the immune system, and chronic diseases. [...]
2023 -  10.1016/j.biopha.2023.115077
Biomedicine & pharmacotherapy, Vol. 165 (september 2023)
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25 p, 833.1 KB |
Differences in LexA regulon structure among Proteobacteria through in vivo assisted comparative genomics
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Erill, Ivan (Centro Nacional de Microelectrónica (Espanya)) ;
Jara Ramírez, Mónica (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Escribano, Marcos (Centro Nacional de Microelectrónica (Espanya)) ;
Campoy Sánchez, Susana (Institut de Recerca i Tecnologia Agroalimentàries. Centre de Recerca en Sanitat Animal) ;
Barbé García, Jordi (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia) ;
Salvador, Noelia (Universitat Autònoma de Barcelona. Departament de Genètica i de Microbiologia)
The LexA regulon encompasses an ensemble of genes involved in preserving cell viability under massive DNA damage and is present in most bacterial phyla. Up to date, however, the scope of this network had only been assessed in the Gamma Proteobacteria. [...]
2004 - 10.1093/nar/gkh996
Nucleic Acids Research, Vol. 32, issue 22 (Nov. 2004) , p. 6617-6626
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Comparative genomics of Balto, a famous historic dog, captures lost diversity of 1920s sled dogs
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Moon, Katherine L. (University of California. Department of Ecology and Evolutionary Biology) ;
Huson, Heather J. (Cornell University College of Agriculture and Life Sciences. Department of Animal Sciences) ;
Morrill, Kathleen (University of Massachusetts Medical School. Bioinformatics and Integrative Biology) ;
Wang, Ming-Shan (University of California. Howard Hughes Medical Institute) ;
Li, Xue (Broad Institute of MIT and Harvard) ;
Srikanth, Krishnamoorthy (Cornell University College of Agriculture and Life Sciences. Department of Animal Sciences) ;
Lindblad-Toh, Kerstin (Uppsala University. Department of Medical Biochemistry & Microbiology) ;
Svenson, Gavin J. (Cleveland Museum of Natural History) ;
Karlsson, Elinor K. (University of Massachusetts Medical School. Bioinformatics and Integrative Biology) ;
Shapiro, Beth (University of California. Department of Ecology and Evolutionary Biology)
We reconstruct the phenotype of Balto, the heroic sled dog renowned for transporting diphtheria antitoxin to Nome, Alaska in 1925, using evolutionary constraint estimates from the Zoonomia alignment of 240 mammals and 682 genomes from dogs and wolves of the 21st century. [...]
2023 - 10.1126/science.abn5887
Science, Vol. 380 Num. 6643 (April 2023) , art. eabn5887
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13 p, 3.3 MB |
Combined genomics to discover genes associated with tolerance to soil carbonate
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Busoms, Silvia (Universitat Autònoma de Barcelona. Departament de Biologia Animal, de Biologia Vegetal i d'Ecologia) ;
Pérez-Martín, Laura (Universitat Autònoma de Barcelona. Departament de Biologia Animal, de Biologia Vegetal i d'Ecologia) ;
Terés, Joana (Universitat Autònoma de Barcelona. Departament de Biologia Animal, de Biologia Vegetal i d'Ecologia) ;
Huang, Xin-Yuan (Nanjing Agricultural University. State Key Laboratory of Crop Genetics and Germplasm Enhancement) ;
Yant, Levi (University of Nottingham) ;
Tolrà Pérez, Roser (Universitat Autònoma de Barcelona. Departament de Biologia Animal, de Biologia Vegetal i d'Ecologia) ;
Salt, David E. (University of Nottingham) ;
Poschenrieder, Charlotte (Universitat Autònoma de Barcelona. Departament de Biologia Animal, de Biologia Vegetal i d'Ecologia)
Carbonate-rich soils limit plant performance and crop production. Previously, local adaptation to carbonated soils was detected in wild Arabidopsis thaliana accessions, allowing the selection of two demes with contrasting phenotypes: A1 (carbonate tolerant, c+) and T6 (carbonate sensitive, c−). [...]
2023 - 10.1111/pce.14691
Plant, cell & environment, (August 2023) , p. 1-13
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20 p, 2.9 MB |
Genomics reveals introgression and purging of deleterious mutations in the Arabian leopard (Panthera pardus nimr)
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Mochales-Riaño, Gabriel (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Fontsere, Claudia (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
de Manuel, Marc (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Talavera, Adrián (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Burriel-Carranza, Bernat (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
Tejero-Cicuéndez, Héctor (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona)) ;
AlGethami, Raed Hamoud M. (National Center for Wildlife) ;
Shobrak, Mohammed (National Center for Wildlife) ;
Marques-Bonet, Tomas 1975- (Institut Català de Paleontologia Miquel Crusafont) ;
Carranza, Salvador (Institut de Biologia Evolutiva (UPF-CSIC) (Barcelona))
In endangered species, low-genetic variation and inbreeding result from recent population declines. Genetic screenings in endangered populations help to assess their vulnerability to extinction and to create informed management actions toward their conservation efforts. [...]
2023 - 10.1016/j.isci.2023.107481
iScience, Vol. 26, Issue 9 (September 2023) , art. 107481
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5 p, 103.6 KB |
Genòmica Vegetal [44782]
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Campos Martínez, Narciso ;
Lois, L. Maria ;
Martín-Hernández, Ana Montserrat ;
Aranzana, Maria José ;
Howad, Werner ;
Castanera, Raúl ;
Arús Canals, Pere ;
Roquet Ruiz, Cristina ;
Universitat Autònoma de Barcelona.
Facultat de Biociències
1 Proporcionar una visió global i actualitzada de les bases teòriques i tecnològiques relacionades amb l'estudi de l'organització, la funció i l'evolució dels genomes de les plantes i les seves aplicacions potencials per a la millora genètica de les plantes de cultiu.
1 Provide a global and updated view of the theoretical and technological bases related to the study of the organization, function and evolution of plant genomes and their potential applications to the genetic improvement of crop plants.
1 Proporcionar una visión global y actualizada de las bases teóricas y tecnológicas relacionadas con el estudio de la organización, la función y la evolución de los genomas de las plantas y sus posibles aplicaciones a la mejora genética de las plantas de cultivo.
2023-24
Màster Universitari en Biologia, Genòmica i Biotecnologia Vegetals / Plant Biology, Genomics and Biotechnology [1533]
3 documents
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32 p, 9.6 MB |
Genomics of perivascular space burden unravels early mechanisms of cerebral small vessel disease
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Duperron, Marie-Gabrielle (Bordeaux University Hospital(França)) ;
Knol, Maria J. (Erasmus MC University Medical Center) ;
Le Grand, Quentin (Bordeaux Population Health Research Center) ;
Evans, Tavia E. (Erasmus MC University Medical Center) ;
Mishra, Aniket (University of Bordeaux) ;
Tsuchida, Ami (University of Bordeaux) ;
Roshchupkin, Gennady V (Erasmus MC University Medical Center) ;
Konuma, Takahiro (Osaka University Graduate School of Medicine) ;
Trégouët, David-Alexandre (University of Bordeaux) ;
Romero, Jose Rafael (The Framingham Heart Study) ;
Frenzel, Stefan (University Medicine Greifswald) ;
Luciano, Michelle (University of Edinburgh) ;
Hofer, Edith (Medical University of Graz) ;
Bourgey, Mathieu (McGill University) ;
Dueker, Nicole D. (University of Miami) ;
Delgado Martínez, María Pilar (Hospital Universitari Vall d'Hebron. Institut de Recerca) ;
Hilal, Saima (National University of Singapore and National University Health System) ;
Tankard, Rick M. (Curtin University) ;
Dubost, Florian (Erasmus MC University Medical Center) ;
Shin, Jean (University of Toronto) ;
Saba, Yasaman (Medical University of Graz) ;
Armstrong, Nicola (Curtin University) ;
Bordes, Constance (Bordeaux Population Health Research Center) ;
Bastin, Mark E. (University of Edinburgh) ;
Beiser, Alexa (Boston University School of Public Health) ;
Brodaty, Henry (Dementia Collaborative Research Centre Assessment and Better Care) ;
Bülow, Robin (University Medicine Greifswald) ;
Carrera, Caty (Institut d'Investigació Biomèdica Sant Pau) ;
Chen, Christopher (National University of Singapore) ;
Cheng, Ching-Yu (Duke-NUS Medical School) ;
Deary, Ian J. (University of Edinburgh) ;
Gampawar, Piyush G. (Medical University of Graz) ;
Himali, Jayandra J. (UT Health San Antonio) ;
Jiang, Jiyang (University of New South Wales) ;
Kawaguchi, Takahisa (Kyoto University Graduate School of Medicine) ;
Li, Shuo (Boston University School of Public Health) ;
Macalli, Melissa (University of Bordeaux) ;
Marquis, Pascale (McGill University) ;
Morris, Zoe (Royal Infirmary of Edinburgh) ;
Muñoz Maniega, Susana (UK Dementia Research Institute Centre at the University of Edinburgh) ;
Miyamoto, Susumu (Kyoto University Hospital) ;
Okawa, Masakazu (Kyoto University Graduate School of Medicine) ;
Paradise, Matthew (University of New South Wales) ;
Parva, Pedram (Harvard Medical School) ;
Rundek, Tatjana (University of Miami) ;
Sargurupremraj, Muralidharan (University of Bordeaux) ;
Schilling, Sabrina (University of Bordeaux) ;
Setoh, Kazuya (Shizuoka Graduate University of Public Health) ;
Soukarieh, Omar (University of Bordeaux) ;
Tabara, Yasuharu (Shizuoka Graduate University of Public Health) ;
Teumer, Alexander (University Medicine Greifswald) ;
Thalamuthu, Anbupalam (University of New South Wales) ;
Trollor, Julian (UNSW) ;
Valdés Hernández, Maria C. (University of Edinburgh) ;
Vernooij, Meike W. (Erasmus MC University Medical Center) ;
Völker, Uwe (University Medicine Greifswald) ;
Wittfeld, Katharina (German Center for Neurodegenerative Diseases) ;
Wong, Tien Yin (Tsinghua University) ;
Wright, Margaret J. (University of Queensland) ;
Zhang, Junyi (Peking Union Medical College Hospital) ;
Zhao, Wanting (Duke-NUS Medical School) ;
Zhu, Yi-Cheng (Peking Union Medical College Hospital) ;
Schmidt, Helena (Medical University of Graz) ;
Sachdev, Perminder S. (the Prince of Wales Hospital) ;
Wen, Wei (University of New South Wales) ;
Yoshida, Kazumichi (Kyoto University Graduate School of Medicine) ;
Joutel, Anne (Université Paris Cité) ;
Satizabal, Claudia L. (UT Health San Antonio) ;
Sacco, Ralph L. (University of Miami) ;
Bourque, Guillaume (McGill University) ;
Lathrop, Mark (Victor Phillip Dahdaleh Institute of Genomic Medicine at McGill University) ;
Paus, Tomas (University of Toronto) ;
Fernandez-Cadenas, Israel (Institut d'Investigació Biomèdica Sant Pau) ;
Yang, Qiong (Boston University School of Public Health) ;
Mazoyer, Bernard (Bordeaux University Hospital (França)) ;
Boutinaud, Philippe (Fealinx) ;
Okada, Yukinori (University of Tokyo) ;
Grabe, Hans J. (German Center for Neurodegenerative Diseases) ;
Mather, Karen A (Neuroscience Research Australia) ;
Schmidt, Reinhold (Medical University of Graz) ;
Joliot, Marc (University of Bordeaux) ;
Ikram, M. Arfan (Erasmus MC University Medical Center) ;
Matsuda, Fumihiko (Kyoto University Graduate School of Medicine) ;
Tzourio, Christophe (Bordeaux University Hospital(França)) ;
Wardlaw, Joanna (University of Edinburgh) ;
Seshadri, Sudha (UT Health San Antonio) ;
Adams, Hieab (Universidad Adolfo Ibáñez) ;
Debette, Stéphanie (Bordeaux University Hospital(França)) ;
Universitat Autònoma de Barcelona
Perivascular space (PVS) burden is an emerging, poorly understood, magnetic resonance imaging marker of cerebral small vessel disease, a leading cause of stroke and dementia. Genome-wide association studies in up to 40,095 participants (18 population-based cohorts, 66. [...]
2023 - 10.1038/s41591-023-02268-w
Nature Medicine, Vol. 29 (april 2023) , p. 950-962
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Genòmica i Proteòmica Avançades [43473]
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Lorenzo Rivera, Julia ;
Avilés, Francesc X ;
Barbadilla Prados, Antonio ;
Querol Murillo, Enric ;
Martinez Urtaza, Jaime Luis ;
Casillas Viladerrams, Sònia ;
Universitat Autònoma de Barcelona.
Facultat de Biociències
L'objectiu bàsic és proporcionar al estudiantat una visió general de la GENÒMICA i PROTEÒMICA incloent-hi els fonaments, tècniques habituals i aplicacions. Els objectius específics de Genòmica tractaran els següents aspectes: la diversitat i complexitat dels genomes eucariotes, una perspectiva històrica i de l'evolució del contingut genòmic, el significat i conseqüències de la variabilitat interespecífica, les tècniques habituals emprades en els estudis de genòmica i transcriptòmica i diverses aplicacions derivades del coneixement d'aquesta ciència. [...]
The overall aim of the subject is to provide students with an overview of Genomics and Proteomics, including the fundamentals, common techniques, and applications. The specific objectives of GENOMICS include understanding the following aspects. [...]
El objetivo es proporcionar a los estudiantado una visión general de la Genómica y Proteómica, incluyendo los fundamentos, técnicas usuales y aplicaciones. Los objectivos específicos de la GENÓMICA tratarán los siguientes aspectos: la diversidad y complejidad de los genomas eucariotas, una perspectiva histórica y evolutiva del contenido genómico, el significado y consecuencias de la viariabilidad intraespecífica, técnicas usuales en los estudios de genómica y transcriptómica, y aplicaciones derivadas del conocimiento de esta ciencia. [...]
2023-24
Màster Universitari en Bioquímica, Biologia Molecular i Biomedicina [1153]
3 documents
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