Depósito Digital de Documentos de la UAB Encontrados 28 registros  1 - 10siguientefinal  ir al registro: La búsqueda tardó 0.01 segundos. 
1.
3 p, 164.2 KB karyoploteR: an R/Bioconductor package to plot customizable genomes displaying arbitrary data / Gel, Bernat (Institut Germans Trias i Pujol. Institut de Medicina Predictiva i Personalitzada del Càncer) ; Serra, Eduard (Institut Germans Trias i Pujol. Institut de Medicina Predictiva i Personalitzada del Càncer) ; Universitat Autònoma de Barcelona
Abstract. Motivation: Data visualization is a crucial tool for data Exploration, analysis and interpretation. For the visualization of genomic data there lacks a tool to create customizable non-circular plots of whole genomes from any species. [...]
2017
Bioinformatics, Vol. 33 Núm. 19 (2017) , p. 3088-3090  
2.
11 p, 1.1 MB Optimized next-generation sequencing genotype-haplotype calling for genome variability analysis / Navarro Fernández, Javier (Universitat Autònoma de Barcelona. Departament d'Arquitectura de Computadors i Sistemes Operatius) ; Nevado, Bruno (University of Oxford. Department of Plant Sciences) ; Hernández Budé, Porfidio (Universitat Autònoma de Barcelona. Departament d'Arquitectura de Computadors i Sistemes Operatius) ; Vera Rodríguez, Gonzalo (Centre de Recerca en Agrigenòmica) ; Ramos Onsins, Sebastián E. (Centre de Recerca en Agrigenòmica)
The accurate estimation of nucleotide variability using next-generation sequencing data is challenged by the high number of sequencing errors produced by new sequencing technologies, especially for nonmodel species, where reference sequences may not be available and the read depth may be low due to limited budgets. [...]
2017
Evolutionary bioinformatics, Vol. 13, (August 2017) , p. 1-11  
3.
6 p, 1.2 MB Approaching long genomic regions and large recombination rates with msParSm as an alternative to MaCS / Montemuiño, Carlos (Universitat Autònoma de Barcelona. Departament d'Arquitectura de Computadors i Sistemes Operatius) ; Espinosa Morales, Antonio Miguel (Universitat Autònoma de Barcelona. Departament d'Arquitectura de Computadors i Sistemes Operatius) ; Moure López, Juan Carlos (Universitat Autònoma de Barcelona. Departament d'Arquitectura de Computadors i Sistemes Operatius) ; Vera Rodríguez, Gonzalo (Centre de Recerca en Agrigenòmica) ; Hernández Budé, Porfidio (Universitat Autònoma de Barcelona. Departament d'Arquitectura de Computadors i Sistemes Operatius) ; Ramos Onsins, Sebastián E. (Centre de Recerca en Agrigenòmica)
The msParSm application is an evolution of msPar, the parallel version of the coalescent simulation program ms, which removes the limitation for simulating long stretches of DNA sequences with large recombination rates, without compromising the accuracy of the standard coalescence. [...]
2016 - 10.4137/EBO.S40268
Evolutionary bioinformatics online, Vol. 12 (Oct. 2016) , p. 223-228  
4.
11 p, 3.1 MB GPCRtm : An amino acid substitution matrix for the transmembrane region of class A G Protein-Coupled Receptors / Rios Azuara, Santiago (Universitat Autònoma de Barcelona. Laboratori de Medicina Computacional) ; Fernandez, Marta F. (Universitat Autònoma de Barcelona. Laboratori de Medicina Computacional) ; Caltabiano, Gianluigi 1978- (Universitat Autònoma de Barcelona. Laboratori de Medicina Computacional) ; Campillo Grau, María Mercedes (Universitat Autònoma de Barcelona. Laboratori de Medicina Computacional) ; Pardo Carrasco, Leonardo (Universitat Autònoma de Barcelona. Laboratori de Medicina Computacional) ; González Wong, Angel (Universitat Autònoma de Barcelona. Laboratori de Medicina Computacional)
Protein sequence alignments and database search methods use standard scoring matrices calculated from amino acid substitution frequencies in general sets of proteins. These general-purpose matrices are not optimal to align accurately sequences with marked compositional biases, such as hydrophobic transmembrane regions found in membrane proteins. [...]
2015 - 10.1186/s12859-015-0639-4
BMC Bioinformatics, Vol. 16 (July 2015) , art. 2016  
5.
13 p, 2.1 MB Population genetic analysis of bi-allelic structural variants from low-coverage sequence data with an expectation-maximization algorithm / Lucas-Lledó, José Ignacio (Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB)) ; Vicente Salvador, David (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Aguado, Cristina (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Cáceres Aguilar, Mario (Institució Catalana de Recerca i Estudis Avançats)
Population genetics and association studies usually rely on a set of known variable sites that are then genotyped in subsequent samples, because it is easier to genotype than to discover the variation. [...]
2014 - 10.1186/1471-2105-15-163
BMC Bioinformatics, Vol. 15 (May 2014) , art. 163  
6.
2 p, 152.1 KB MGDB : crossing the marker genes of a user microarray with a database of public-microarrays marker genes / Huerta Casado, Mario (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Munyi, Marc (Universitat Autònoma de Barcelona. Escola d'Enginyeria) ; Expósito Pérez, David (Universitat Autònoma de Barcelona. Escola d'Enginyeria) ; Querol Murillo, Enrique (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Cedano Rodríguez, Juan Antonio (Universidad de la República Regional Norte-Salto. Laboratorio de Inmunología)
Summary: The microarrays performed by scientific teams grow exponentially. These microarray data could be useful for researchers around the world, but unfortunately they are underused. To fully exploit these data, it is necessary (i) to extract these data from a repository of the high-throughput gene expression data like Gene Expression Omnibus (GEO) and (ii) to make the data from different microarrays comparable with tools easy to use for scientists. [...]
2013 - 10.1093/bioinformatics/btu109
Bioinformatics, Vol. 30, issue 12 (June 2014) , p. 1780–1781, p. 1780-1781  
7.
7 p, 968.3 KB Qxpak.5 : old mixed model solutions for new genomics problems / Pérez-Enciso, Miguel (Centre de Recerca en Agrigenòmica) ; Misztal, Ignacy (University of Georgia. Department of Animal and Dairy Science)
Mixed models have a long and fruitful history in statistics. They are pertinent to genomics problems because they are highly versatile, accommodating a wide variety of situations within the same theoretical and algorithmic framework. [...]
2011 - 10.1186/1471-2105-12-202
BMC Bioinformatics, Vol. 12 (May 2011) , art. 202  
8.
14 p, 810.6 KB Including Functional Annotations and Extending the Collection of Structural Classifications of Protein Loops (ArchDB) / Hermoso, Antoni (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Espadaler, Jordi (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Enrique Querol, Enrique (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Avilés, Francesc X. (Francesc Xavier) (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Sternberg, Michael J.E. (Imperial College. Department of Biological Sciences. Structural Bioinformatics Group) ; Oliva, Baldomero (Universitat Pompeu Fabra/IMIM. Parc de Recerca Biomèdica. Laboratori de Bioinformàtica Estructural) ; Fernandez-Fuentes, Narcis (St. James University Hospital. Leeds Institute of Molecular Medicine)
Loops represent an important part of protein structures. The study of loop is critical for two main reasons: First, loops are often involved in protein function, stability and folding. Second, despite improvements in experimental and computational structure prediction methods, modeling the conformation of loops remains problematic. [...]
2007
Bioinformatics and biology insights, Vol. 1 (January 2007) , p. 77-90  
9.
8 p, 741.7 KB PCOPGene-Net : holistic characterisation of cellular states from microarray data based on continuous and non-continuous analysis of gene-expression relationships / Huerta Casado, Mario (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Cedano Rodríguez, Juan Antonio (Universitat Autònoma de Barcelona. Departament de Bioquímica i de Biologia Molecular) ; Peña, Dario (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Rodriguez, Antonio (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Querol Murillo, Enrique (Instituto de Biotecnología y Biomedicina "Vicent Villar Palasi")
Microarray technology is so expensive and powerful that it is essential to extract maximum value from microarray data, specially from large-sample-series microarrays. Our web tools attempt to respond to these researchers' needs by facilitating the possibility to test and formulate from a hypothesis to entire models under a holistic point of view. [...]
2009 - 10.1186/1471-2105-10-138
BMC Bioinformatics, Vol. 10 (2009) , art. 138  
10.
7 p, 953.8 KB NCR-PCOPGene : An Exploratory Tool for Analysis of Sample-Classes Effect on Gene-Expression Relationships / Cedano Rodríguez, Juan Antonio (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Huerta Casado, Mario (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Querol Murillo, Enrique (Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí") ; Universitat Autònoma de Barcelona. Departament de Bioquímica i Biologia Molecular
Background. Microarray technology is so expensive and powerful that it is essential to extract maximum value from microarray data. Our tools allow researchers to test and formulate from a hypothesis to entire models. [...]
2008
Advances in bioinformatics, Vol. 2008 (Desember 2008) , art. 789026  

Depósito Digital de Documentos de la UAB : Encontrados 28 registros   1 - 10siguientefinal  ir al registro:
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