J
José María Carazo
Researcher at Spanish National Research Council
Publications - 318
Citations - 14572
José María Carazo is an academic researcher from Spanish National Research Council. The author has contributed to research in topics: Image processing & Iterative reconstruction. The author has an hindex of 59, co-authored 309 publications receiving 12499 citations. Previous affiliations of José María Carazo include University of Málaga & University of Almería.
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GENECODIS: a web-based tool for finding significant concurrent annotations in gene lists
Pedro Carmona-Sáez,Monica Chagoyen,Monica Chagoyen,Francisco Tirado,José María Carazo,Alberto Pascual-Montano +5 more
TL;DR: GENECODIS as discussed by the authors is a web-based tool that integrates different sources of information to search for annotations that frequently co-occur in a set of genes and rank them by statistical significance.
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XMIPP: a new generation of an open-source image processing package for electron microscopy
Carlos Oscar S. Sorzano,Roberto Marabini,Javier Velázquez-Muriel,J.R. Bilbao-Castro,Sjors H.W. Scheres,José María Carazo,Alberto Pascual-Montano +6 more
TL;DR: A general overview of a new generation of Xmipp that has been re-engineered to maximize flexibility and modularity, potentially facilitating its integration in future standardization efforts in the field.
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Scipion: A software framework toward integration, reproducibility and validation in 3D electron microscopy.
J.M. de la Rosa-Trevín,A. Quintana,L. del Cano,A. Zaldívar,I. Foche,J. Gutiérrez,Josué Gómez-Blanco,Jordi Burguet-Castell,J. Cuenca-Alba,Vahid Abrishami,Javier Vargas,Joaquín Otón,Grigory Sharov,José Luis Vilas,J. Navas,P. Conesa,Mohsen Kazemi,Roberto Marabini,Carlos Oscar S. Sorzano,Carlos Oscar S. Sorzano,José María Carazo +20 more
TL;DR: Scipion is a software framework for integrating several 3DEM software packages through a workflow-based approach that allows the execution of reusable, standardized, traceable and reproducible image-processing protocols.
Journal ArticleDOI
GeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological information
Rubén Nogales-Cadenas,Pedro Carmona-Sáez,Miguel Vazquez,Cesar Vicente,Xiaoyuan Yang,Francisco Tirado,José María Carazo,Alberto Pascual-Montano +7 more
TL;DR: A new version of the GeneCodis system has been developed, expanding the functional information with regulatory patterns and user-defined annotations, offering the possibility of integrating all sources of information in the same analysis.
Journal ArticleDOI
Disentangling conformational states of macromolecules in 3D-EM through likelihood optimization.
Sjors H.W. Scheres,Haixiao Gao,Mikel Valle,Gabor T. Herman,Paul P. B. Eggermont,Joachim Frank,José María Carazo +6 more
TL;DR: This work presents a maximum likelihood–based classification method that does not depend on prior knowledge about the structural variability, and demonstrates its effectiveness for two macromolecular assemblies with different types of conformational variability: the Escherichia coli ribosome and Simian virus 40 large T-antigen.