2008 |
44 | EE | Joan Valls,
Mònica Grau,
Xavier Solé,
Pilar Hernández,
David Montaner,
Joaquín Dopazo,
Miguel A. Peinado,
Gabriel Capellá,
Víctor Moreno,
Miguel Angel Pujana:
CLEAR-test: Combining inference for differential expression and variability in microarray data analysis.
Journal of Biomedical Informatics 41(1): 33-45 (2008) |
43 | EE | Jaime Huerta-Cepas,
Anibal Bueno,
Joaquín Dopazo,
Toni Gabaldón:
PhylomeDB: a database for genome-wide collections of gene phylogenies.
Nucleic Acids Research 36(Database-Issue): 491-496 (2008) |
42 | EE | Joke Reumers,
Lucía Conde,
Ignacio Medina,
Sebastian Maurer-Stroh,
Joost J. J. van Durme,
Joaquín Dopazo,
Frederic Rousseau,
Joost Schymkowitz:
Joint annotation of coding and non-coding single nucleotide polymorphisms and mutations in the SNPeffect and PupaSuite databases.
Nucleic Acids Research 36(Database-Issue): 825-829 (2008) |
2007 |
41 | EE | Pablo Minguez,
Fátima Al-Shahrour,
David Montaner,
Joaquín Dopazo:
Functional profiling of microarray experiments using text-mining derived bioentities.
Bioinformatics 23(22): 3098-3099 (2007) |
40 | EE | Ignacio Medina,
David Montaner,
Joaquín Tárraga,
Joaquín Dopazo:
Prophet, a web-based tool for class prediction using microarray data.
Bioinformatics 23(3): 390-391 (2007) |
39 | EE | Joaquín Tárraga,
Ignacio Medina,
Leonardo Arbiza,
Jaime Huerta-Cepas,
Toni Gabaldón,
Joaquín Dopazo,
Hernán Dopazo:
Phylemon: a suite of web tools for molecular evolution, phylogenetics and phylogenomics.
Nucleic Acids Research 35(Web-Server-Issue): 38-42 (2007) |
38 | EE | Marc A. Martí-Renom,
Ursula Pieper,
Mallur S. Madhusudhan,
Andrea Rossi,
Narayanan Eswar,
Fred P. Davis,
Fátima Al-Shahrour,
Joaquín Dopazo,
Andrej Sali:
DBAli tools: mining the protein structure space.
Nucleic Acids Research 35(Web-Server-Issue): 393-397 (2007) |
37 | EE | Lucía Conde,
David Montaner,
Jordi Burguet-Castell,
Joaquín Tárraga,
Ignacio Medina,
Fátima Al-Shahrour,
Joaquín Dopazo:
ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling.
Nucleic Acids Research 35(Web-Server-Issue): 81-85 (2007) |
36 | EE | Fátima Al-Shahrour,
Pablo Minguez,
Joaquín Tárraga,
Ignacio Medina,
Eva Alloza,
David Montaner,
Joaquín Dopazo:
FatiGO +: a functional profiling tool for genomic data. Integration of functional annotation, regulatory motifs and interaction data with microarray experiments.
Nucleic Acids Research 35(Web-Server-Issue): 91-96 (2007) |
2006 |
35 | EE | Fátima Al-Shahrour,
Pablo Minguez,
Joaquín Tárraga,
David Montaner,
Eva Alloza,
Juan M. Vaquerizas,
Lucía Conde,
Christian Blaschke,
Javier Vera,
Joaquín Dopazo:
BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments.
Nucleic Acids Research 34(Web-Server-Issue): 472-476 (2006) |
34 | EE | David Montaner,
Joaquín Tárraga,
Jaime Huerta-Cepas,
Jordi Burguet-Castell,
Juan M. Vaquerizas,
Lucía Conde,
Pablo Minguez,
Javier Vera,
Sach Mukherjee,
Joan Valls,
Miguel A. G. Pujana,
Eva Alloza,
Javier Herrero,
Fátima Al-Shahrour,
Joaquín Dopazo:
Next station in microarray data analysis: GEPAS.
Nucleic Acids Research 34(Web-Server-Issue): 486-491 (2006) |
33 | EE | Lucía Conde,
Juan M. Vaquerizas,
Hernán Dopazo,
Leonardo Arbiza,
Joke Reumers,
Frederic Rousseau,
Joost Schymkowitz,
Joaquín Dopazo:
PupaSuite: finding functional single nucleotide polymorphisms for large-scale genotyping purposes.
Nucleic Acids Research 34(Web-Server-Issue): 621-625 (2006) |
2005 |
32 | EE | Fátima Al-Shahrour,
Ramón Díaz-Uriarte,
Joaquín Dopazo:
Discovering molecular functions significantly related to phenotypes by combining gene expression data and biological information.
Bioinformatics 21(13): 2988-2993 (2005) |
31 | EE | Javier Santoyo,
Juan M. Vaquerizas,
Joaquín Dopazo:
Highly specific and accurate selection of siRNAs for high-throughput functional assays.
Bioinformatics 21(8): 1376-1382 (2005) |
30 | EE | Robert Hoffmann,
Joaquín Dopazo,
Juan C. Cigudosa,
Alfonso Valencia:
HCAD, closing the gap between breakpoints and genes.
Nucleic Acids Research 33(Database-Issue): 511-513 (2005) |
29 | EE | Fátima Al-Shahrour,
Pablo Minguez,
Juan M. Vaquerizas,
Lucía Conde,
Joaquín Dopazo:
BABELOMICS: a suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments.
Nucleic Acids Research 33(Web-Server-Issue): 460-464 (2005) |
28 | EE | Lucía Conde,
Juan M. Vaquerizas,
Carles Ferrer-Costa,
Xavier de la Cruz,
Modesto Orozco,
Joaquín Dopazo:
PupasView: a visual tool for selecting suitable SNPs, with putative pathological effect in genes, for genotyping purposes.
Nucleic Acids Research 33(Web-Server-Issue): 501-505 (2005) |
27 | EE | Juan M. Vaquerizas,
Lucía Conde,
Patricio Yankilevich,
Amaya Cabezón,
Pablo Minguez,
Ramón Díaz-Uriarte,
Fátima Al-Shahrour,
Javier Herrero,
Joaquín Dopazo:
GEPAS, an experiment-oriented pipeline for the analysis of microarray gene expression data.
Nucleic Acids Research 33(Web-Server-Issue): 616-620 (2005) |
2004 |
26 | EE | Hernán Dopazo,
Javier Santoyo,
Joaquín Dopazo:
Phylogenomics and the number of characters required for obtaining an accurate phylogeny of eukaryote model species.
ISMB/ECCB (Supplement of Bioinformatics) 2004: 116-121 |
25 | | Javier Herrero,
Juan M. Vaquerizas,
Fátima Al-Shahrour,
Lucía Conde,
Álvaro Mateos,
Javier Santoyo,
Ramón Díaz-Uriarte,
Joaquín Dopazo:
New Challenges in Gene Expression Data Analysis and the Extended GEPAS.
Spanish Bioinformatics Conference 2004: 1-5 |
24 | | Javier Santoyo,
Juan M. Vaquerizas,
Joaquín Dopazo:
Highly Specific and Accurate Selection of siRNAs for High-Throughput Functional Assays.
Spanish Bioinformatics Conference 2004: 132-136 |
23 | | Lucía Conde,
Juan M. Vaquerizas,
Javier Santoyo,
Fátima Al-Shahrour,
Joaquín Dopazo:
Finding SNPs with Putative Phenotypic Effect at Transcriptional Level.
Spanish Bioinformatics Conference 2004: 157-160 |
22 | | Álvaro Mateos,
Joaquín Dopazo:
An Approach to the Modular Structure of Cancer.
Spanish Bioinformatics Conference 2004: 161-165 |
21 | | Leonardo Arbiza,
Joaquín Dopazo,
Hernán Dopazo:
Infering Non-Neutral Evolution within the Context of a Growing Genomic Framework: Preliminary Results using Human-Chimp Proteomes.
Spanish Bioinformatics Conference 2004: 92-99 |
20 | EE | Juan M. Vaquerizas,
Joaquín Dopazo,
Ramón Díaz-Uriarte:
DNMAD: web-based diagnosis and normalization for microarray data.
Bioinformatics 20(18): 3656-3658 (2004) |
19 | EE | Fátima Al-Shahrour,
Ramón Díaz-Uriarte,
Joaquín Dopazo:
FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes.
Bioinformatics 20(4): (2004) |
18 | | Lucía Conde,
Juan M. Vaquerizas,
Javier Santoyo,
Fátima Al-Shahrour,
Sergio Ruiz-Llorente,
Mercedes Robledo,
Joaquín Dopazo:
PupaSNP Finder: a web tool for finding SNPs with putative effect at transcriptional level.
Nucleic Acids Research 32(Web-Server-Issue): 242-248 (2004) |
17 | | Javier Herrero,
Juan M. Vaquerizas,
Fátima Al-Shahrour,
Lucía Conde,
Álvaro Mateos,
Javier Santoyo,
Ramón Díaz-Uriarte,
Joaquín Dopazo:
New challenges in gene expression data analysis and the extended GEPAS.
Nucleic Acids Research 32(Web-Server-Issue): 485-491 (2004) |
2003 |
16 | EE | Michal Karzynski,
Álvaro Mateos,
Javier Herrero,
Joaquín Dopazo:
Using a Genetic Algorithm and a Perceptron for Feature Selection and Supervised Class Learning in DNA Microarray Data.
Artif. Intell. Rev. 20(1-2): 39-51 (2003) |
15 | | Javier Herrero,
Ramón Díaz-Uriarte,
Joaquín Dopazo:
Gene expression data preprocessing.
Bioinformatics 19(5): 655-656 (2003) |
14 | | Javier Herrero,
Fátima Al-Shahrour,
Ramón Díaz-Uriarte,
Álvaro Mateos,
Juan M. Vaquerizas,
Javier Santoyo,
Joaquín Dopazo:
GEPAS: a web-based resource for microarray gene expression data analysis.
Nucleic Acids Research 31(13): 3461-3467 (2003) |
13 | EE | Lucía Conde,
Álvaro Mateos,
Javier Herrero,
Joaquín Dopazo:
Improved Class Prediction in DNA Microarray Gene Expression Data by Unsupervised Reduction of the Dimensionality followed by Supervised Learning with a Perceptron.
VLSI Signal Processing 35(3): 245-253 (2003) |
2002 |
12 | EE | Álvaro Mateos,
Javier Herrero,
Joaquín Dopazo:
Using Perceptrons for Supervised Classification of DNA Microarray Samples: Obtaining the Optimal Level of Information and Finding Differentially Expressed Genes.
ICANN 2002: 577-582 |
2001 |
11 | | Javier Herrero,
Alfonso Valencia,
Joaquín Dopazo:
A hierarchical unsupervised growing neural network for clustering gene expression patterns.
Bioinformatics 17(1): 126-136 (2001) |
1998 |
10 | | Huaichun Wang,
Joaquín Dopazo,
José María Carazo:
Self-organizing tree growing network for classifying amino acids.
Bioinformatics 14(4): 376-377 (1998) |
9 | | Oswaldo Trelles,
C. Ceron,
Huaichun Wang,
Joaquín Dopazo,
José María Carazo:
New phylogenetic venues opened by a novel implementation of the DNAml algorithm.
Bioinformatics 14(6): 544-545 (1998) |
8 | | C. Ceron,
Joaquín Dopazo,
Emilio L. Zapata,
José María Carazo,
Oswaldo Trelles:
Parallel Implementation of DNAml Program on Message-Passing Architectures.
Parallel Computing 24(5-6): 701-716 (1998) |
1997 |
7 | | Joaquín Dopazo,
Huaichun Wang,
José María Carazo:
A New Type of Unsupervised Growing Neural Network for Biological Sequence Classification That Adopts the Topology of a Phylogenetic Tree.
IWANN 1997: 932-941 |
6 | | Joaquín Dopazo:
A new index to find regions showing an unexpected variability or conservation in sequence alignments.
Computer Applications in the Biosciences 13(3): 313-317 (1997) |
1995 |
5 | | Oswaldo Trelles-Salazar,
Emilio L. Zapata,
Joaquín Dopazo,
A. F. Coulson,
José María Carazo:
An image-processing approach to dotplots: an X-Window-based program for interactive analysis of dotplots derived from sequence and structural data.
Computer Applications in the Biosciences 11(3): 301-308 (1995) |
1993 |
4 | | Joaquín Dopazo,
A. Taberner,
A. Moya:
Quantitative characterization of antigens using monoclonal antibody reactivities.
Computer Applications in the Biosciences 9(1): 101-107 (1993) |
3 | | Joaquín Dopazo,
A. Rodriguez,
J. C. Saiz,
F. Sobrino:
Design of primers for PCR amplification of highly variable genomes.
Computer Applications in the Biosciences 9(2): 123-125 (1993) |
2 | | A. Taberner,
P. Castanera,
E. Silvestre,
Joaquín Dopazo:
Estimation of the intrinsic rate of natural increase and its error by both algebraic and resampling approaches.
Computer Applications in the Biosciences 9(5): 535-540 (1993) |
1988 |
1 | | Joaquín Dopazo:
Reducing the effect of the data order in algorithms for constructing phylogenetic trees.
Computer Applications in the Biosciences 4(2): 307 (1988) |