Alberto D. Pascual-Montano

38 papers B 1C 2Journal 25Unranked 10

Year	Rank	Type	Title / Venue / Authors
2015	J	`jnl`	NFFinder: an online bioinformatics tool for searching similar transcriptomics experiments in the context of drug repositioning. Nucleic Acids Res. Javier Setoain, Mònica Franch, Marta Martínez, Daniel Tabas-Madrid, Carlos Oscar Sánchez Sorzano, Annette Bakker, Eduardo Gonzalez-Couto, Juan Elvira, Alberto D. Pascual-Montano
2015	J	`jnl`	NMF-mGPU: non-negative matrix factorization on multi-GPU systems. BMC Bioinform. Edgardo Mejía-Roa, Daniel Tabas-Madrid, Javier Setoain, Carlos García, Francisco Tirado, Alberto D. Pascual-Montano
2013	J	`jnl`	3DEM Loupe: analysis of macromolecular dynamics using structures from electron microscopy. Nucleic Acids Res. Rubén Nogales-Cadenas, Slavica Jonic, Florence Tama, A. A. Arteni, Daniel Tabas-Madrid, Miguel Vázquez, Alberto D. Pascual-Montano, Carlos Oscar Sánchez Sorzano
2012	J	`jnl`	GeneCodis3: a non-redundant and modular enrichment analysis tool for functional genomics. Nucleic Acids Res. Daniel Tabas-Madrid, Rubén Nogales-Cadenas, Alberto D. Pascual-Montano
2011	J	`jnl`	Assessment of NER solutions against the first and second CALBC Silver Standard Corpus. J. Biomed. Semant. Dietrich Rebholz-Schuhmann, Antonio Jimeno-Yepes, Chen Li, Senay Kafkas, Ian Lewin, Ning Kang, Peter T. Corbett, David Milward, Ekaterina Buyko, Elena Beisswanger, Kerstin Hornbostel, Alexandre Kouznetsov, René Witte, Jonas B. Laurila, Christopher J. O. Baker, Cheng-Ju Kuo, Simon Clematide, Fabio Rinaldi, Richárd Farkas, György Móra, Kazuo Hara, Laura Inés Furlong, Michael Rautschka, Mariana L. Neves, Alberto D. Pascual-Montano, Qi Wei, Nigel Collier, Md. Faisal Mahbub Chowdhury, Alberto Lavelli, Rafael Berlanga Llavori, Roser Morante, Vincent Van Asch, Walter Daelemans, José Luís Marina, Erik M. van Mulligen, Jan A. Kors, Udo Hahn
2011	C	`conf`	Biclustering and classification analysis in gene expression using Nonnegative Matrix Factorization on multi-GPU systems. ISDA Edgardo Mejía-Roa, Carlos García, José Ignacio Gómez, Manuel Prieto, Francisco Tirado, Rubén Nogales, Alberto D. Pascual-Montano
2011	B	`conf`	Finding closed frequent item sets by intersecting transactions. EDBT Christian Borgelt, Xiaoyuan Yang, Rubén Nogales-Cadenas, Pedro Carmona-Saez, Alberto D. Pascual-Montano
2011	J	`jnl`	Gene expression modular analysis: an overview from the data mining perspective. WIREs Data Mining Knowl. Discov. Alberto D. Pascual-Montano
2011	—	`conf`	Parallelism on the Nonnegative Matrix Factorization. PARCO Edgardo Mejía-Roa, Carlos García, José Ignacio Gómez, Manuel Prieto, Christian Tenllado, Alberto D. Pascual-Montano, Francisco Tirado
2011	J	`jnl`	U-Compare bio-event meta-service: compatible BioNLP event extraction services. BMC Bioinform. Yoshinobu Kano, Jari Björne, Filip Ginter, Tapio Salakoski, Ekaterina Buyko, Udo Hahn, K. Bretonnel Cohen, Karin Verspoor, Christophe Roeder, Lawrence E. Hunter, Halil Kilicoglu, Sabine Bergler, Sofie Van Landeghem, Thomas Van Parys, Yves Van de Peer, Makoto Miwa, Sophia Ananiadou, Mariana L. Neves, Alberto D. Pascual-Montano, Arzucan Özgür, Dragomir R. Radev, Sebastian Riedel, Rune Sætre, Hong-Woo Chun, Jin-Dong Kim, Sampo Pyysalo, Tomoko Ohta, Jun'ichi Tsujii
2010	—	`conf`	Assessment of NER solutions against the first and second CALBC silver standard corpus. Semantic Mining in Biomedicine Dietrich Rebholz-Schuhmann, Antonio Jimeno-Yepes, Chen Li, Senay Kafkas, Ian Lewin, Ning Kang, Peter T. Corbett, David Milward, Ekaterina Buyko, Elena Beisswanger, Kerstin Hornbostel, Alexandre Kouznetsov, René Witte, Jonas B. Laurila, Christopher J. O. Baker, Cheng-Ju Kuo, Simon Clematide, Fabio Rinaldi, Richárd Farkas, György Móra, Kazuo Hara, Laura Inés Furlong, Michael Rautschka, Mariana L. Neves, Alberto D. Pascual-Montano, Qi Wei, Nigel Collier, Md. Faisal Mahbub Chowdhury, Alberto Lavelli, Rafael Berlanga Llavori, Roser Morante, Vincent Van Asch, Walter Daelemans, José Luís Marina, Erik M. van Mulligen, Jan A. Kors, Udo Hahn
2010	J	`jnl`	Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling. Nucleic Acids Res. Ignacio Medina, José Carbonell, Luis Pulido, Sara C. Madeira, Stefan Götz, Ana Conesa, Joaquín Tárraga, Alberto D. Pascual-Montano, Rubén Nogales-Cadenas, Javier Santoyo, Francisco García-García, Martina Marbà, David Montaner, Joaquín Dopazo
2010	J	`jnl`	MARQ: an online tool to mine GEO for experiments with similar or opposite gene expression signatures. Nucleic Acids Res. Miguel Vázquez, Rubén Nogales-Cadenas, Javier Arroyo, Pedro Botías, Raul García, José María Carazo, Francisco Tirado, Alberto D. Pascual-Montano, Pedro Carmona-Saez
2010	J	`jnl`	Moara: a Java library for extracting and normalizing gene and protein mentions. BMC Bioinform. Mariana L. Neves, José María Carazo, Alberto D. Pascual-Montano
2009	J	`jnl`	CentrosomeDB: a human centrosomal proteins database. Nucleic Acids Res. Rubén Nogales-Cadenas, Federico Abascal, Javier Díez-Pérez, José María Carazo, Alberto D. Pascual-Montano
2009	—	`conf`	Extraction of biomedical events using case-based reasoning. BioNLP@HLT-NAACL (Shared Task) Mariana L. Neves, José María Carazo, Alberto D. Pascual-Montano
2009	J	`jnl`	GeneCodis: interpreting gene lists through enrichment analysis and integration of diverse biological information. Nucleic Acids Res. Rubén Nogales-Cadenas, Pedro Carmona-Saez, Miguel Vázquez, Cesar Vicente, Xiaoyuan Yang, Francisco Tirado, José María Carazo, Alberto D. Pascual-Montano
2009	J	`jnl`	SENT: semantic features in text. Nucleic Acids Res. Miguel Vázquez, Pedro Carmona-Saez, Rubén Nogales-Cadenas, Monica Chagoyen, Francisco Tirado, José María Carazo, Alberto D. Pascual-Montano
2008	J	`jnl`	Assessment of protein set coherence using functional annotations. BMC Bioinform. Monica Chagoyen, José María Carazo, Alberto D. Pascual-Montano
2008	—	`conf`	CBR-Tagger: a case-based reasoning approach to the gene/protein mention problem. BioNLP Mariana L. Neves, Monica Chagoyen, José María Carazo, Alberto D. Pascual-Montano
2008	J	`jnl`	ChIPCodis: mining complex regulatory systems in yeast by concurrent enrichment analysis of chip-on-chip data. Bioinform. Federico Abascal, Pedro Carmona-Saez, José María Carazo, Alberto D. Pascual-Montano
2008	—	`conf`	Extracting and Normalizing Gene/Protein Mentions with the Flexible and Trainable Moara Java Library. BioLINK@ISMB/ECCB Mariana L. Neves, José María Carazo, Alberto D. Pascual-Montano
2008	—	`conf`	Named Entity Recognition and Normalization: A Domain-Specific Language Approach. IWPACBB Miguel Vázquez, Monica Chagoyen, Alberto D. Pascual-Montano
2008	C	`conf`	Non-negative matrix factorization in bioinformatics: Towards understanding biological processes. ISCAS Alberto D. Pascual-Montano
2008	J	`jnl`	bioNMF: a web-based tool for nonnegative matrix factorization in biology. Nucleic Acids Res. Edgardo Mejía-Roa, Pedro Carmona-Saez, Rubén Nogales, Cesar Vicente, Miguel Vázquez, X. Y. Yang, Carlos García, Francisco Tirado, Alberto D. Pascual-Montano
2006	J	`jnl`	A literature-based similarity metric for biological processes. BMC Bioinform. Monica Chagoyen, Pedro Carmona-Saez, Concha Gil, José María Carazo, Alberto D. Pascual-Montano
2006	J	`jnl`	Biclustering of gene expression data by non-smooth non-negative matrix factorization. BMC Bioinform. Pedro Carmona-Saez, Roberto D. Pascual-Marqui, Francisco Tirado, José María Carazo, Alberto D. Pascual-Montano
2006	J	`jnl`	Discovering semantic features in the literature: a foundation for building functional associations. BMC Bioinform. Monica Chagoyen, Pedro Carmona-Saez, Hagit Shatkay, José María Carazo, Alberto D. Pascual-Montano
2006	J	`jnl`	Integrated analysis of gene expression by association rules discovery. BMC Bioinform. Pedro Carmona-Saez, Monica Chagoyen, Andrés Rodríguez Moreno, Oswaldo Trelles, José María Carazo, Alberto D. Pascual-Montano
2006	J	`jnl`	Nonsmooth Nonnegative Matrix Factorization (nsNMF). IEEE Trans. Pattern Anal. Mach. Intell. Alberto D. Pascual-Montano, José María Carazo, Kieko Kochi, Dietrich Lehmann, Roberto D. Pascual-Marqui
2006	J	`jnl`	Optimization problems in electron microscopy of single particles. Ann. Oper. Res. Carlos Oscar Sánchez Sorzano, Roberto Marabini, Alberto D. Pascual-Montano, Sjors H. W. Scheres, José María Carazo
2006	J	`jnl`	bioNMF: a versatile tool for non-negative matrix factorization in biology. BMC Bioinform. Alberto D. Pascual-Montano, Pedro Carmona-Saez, Monica Chagoyen, Francisco Tirado, José María Carazo, Roberto D. Pascual-Marqui
2005	—	`conf`	A Speculative Parallel Algorithm for Self-Organizing Maps. PARCO Carlos García, Manuel Prieto, Alberto D. Pascual-Montano
2005	—	`conf`	Two-way clustering of gene expression profiles by sparse matrix factorization. CSB Workshops Alberto D. Pascual-Montano, Francisco Tirado, Pedro Carmona-Saez, José María Carazo, Roberto D. Pascual-Marqui
2003	J	`jnl`	Engene: the processing and exploratory analysis of gene expression data. Bioinform. Jorge García de la Nava, Daniel Franco Santaella, Jesús Cuenca Alba, José María Carazo, Oswaldo Trelles, Alberto D. Pascual-Montano
2002	—	`conf`	Modeling Shape and Topology of 3D Images of Biological Specimens. ICPR (1) Pedro A. de Alarcón, Alberto D. Pascual-Montano, Amarnath Gupta, José María Carazo
2002	—	`conf`	Spin Images and Neural Networks for Efficient Content-Based Retrieval in 3D Object Databases. CIVR Pedro A. de Alarcón, Alberto D. Pascual-Montano, José María Carazo
2001	J	`jnl`	Smoothly distributed fuzzy c-means: a new self-organizing map. Pattern Recognit. Roberto D. Pascual-Marqui, Alberto D. Pascual-Montano, Kieko Kochi, José María Carazo