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2020 – today
- 2022
[j28]Ramón Díaz-Uriarte
, Pablo Herrera-Nieto:
EvAM-Tools: tools for evolutionary accumulation and cancer progression models. Bioinform. 38(24): 5457-5459 (2022)- [j27]Ramón Díaz-Uriarte, Elisa Gómez de Lope, Rosalba Giugno, Holger Fröhlich, Petr V. Nazarov, Isabel A. Nepomuceno-Chamorro, Armin Rauschenberger, Enrico Glaab:
Ten quick tips for biomarker discovery and validation analyses using machine learning. PLoS Comput. Biol. 18(8) (2022) - 2021
- [j26]Juan Diaz-Colunga, Ramón Díaz-Uriarte:
Conditional prediction of consecutive tumor evolution using cancer progression models: What genotype comes next? PLoS Comput. Biol. 17(12) (2021)
2010 – 2019
- 2019
- [j25]Sayed-Rzgar Hosseini, Ramón Díaz-Uriarte, Florian Markowetz, Niko Beerenwinkel:
Estimating the predictability of cancer evolution. Bioinform. 35(14): i389-i397 (2019) - [j24]Ramón Díaz-Uriarte, Claudia Vasallo:
Every which way? On predicting tumor evolution using cancer progression models. PLoS Comput. Biol. 15(8) (2019) - 2018
- [j23]Ramón Díaz-Uriarte:
Cancer progression models and fitness landscapes: a many-to-many relationship. Bioinform. 34(5): 836-844 (2018) - 2017
- [j22]Ramón Díaz-Uriarte:
OncoSimulR: genetic simulation with arbitrary epistasis and mutator genes in asexual populations. Bioinform. 33(12): 1898-1899 (2017) - 2015
- [j21]Ramón Díaz-Uriarte:
Identifying restrictions in the order of accumulation of mutations during tumor progression: effects of passengers, evolutionary models, and sampling. BMC Bioinform. 16: 41:1-41:26 (2015) - 2014
- [j20]Ramón Díaz-Uriarte:
ADaCGH2: parallelized analysis of (big) CNA data. Bioinform. 30(12): 1759-1761 (2014) - 2010
- [j19]Angel Carro, Daniel Rico, Oscar M. Rueda, Ramón Díaz-Uriarte, David G. Pisano:
waviCGH: a web application for the analysis and visualization of genomic copy number alterations. Nucleic Acids Res. 38(Web-Server-Issue): 182-187 (2010)
2000 – 2009
- 2009
- [j18]Oscar M. Rueda, Ramón Díaz-Uriarte:
RJaCGH: Bayesian analysis of aCGH arrays for detecting copy number changes and recurrent regions. Bioinform. 25(15): 1959-1960 (2009) - [j17]Oscar M. Rueda, Ramón Díaz-Uriarte:
Detection of recurrent copy number alterations in the genome: taking among-subject heterogeneity seriously. BMC Bioinform. 10: 308 (2009) - [j16]Edward R. Morrissey, Ramón Díaz-Uriarte:
Pomelo II: finding differentially expressed genes. Nucleic Acids Res. 37(Web-Server-Issue): 581-586 (2009) - 2008
- [j15]Ramón Díaz-Uriarte:
SignS: a parallelized, open-source, freely available, web-based tool for gene selection and molecular signatures for survival and censored data. BMC Bioinform. 9 (2008) - [j14]Andreu Alibés, Andrés Cañada, Ramón Díaz-Uriarte:
PaLS: filtering common literature, biological terms and pathway information. Nucleic Acids Res. 36(Web-Server-Issue): 364-367 (2008) - 2007
- [j13]Andreu Alibés, Patricio Yankilevich, Andrés Cañada, Ramón Díaz-Uriarte:
IDconverter and IDClight: Conversion and annotation of gene and protein IDs. BMC Bioinform. 8 (2007) - [j12]Ramón Díaz-Uriarte:
GeneSrF and varSelRF: a web-based tool and R package for gene selection and classification using random forest. BMC Bioinform. 8 (2007) - [j11]Oscar M. Rueda, Ramón Díaz-Uriarte:
A response to Yu et al. "A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array", BMC Bioinformatics 2007, 8: 145. BMC Bioinform. 8 (2007) - [j10]Ramón Díaz-Uriarte, Andreu Alibés, Edward R. Morrissey, Andrés Cañada, Oscar M. Rueda, Mariana L. Neves:
Asterias: integrated analysis of expression and aCGH data using an open-source, web-based, parallelized software suite. Nucleic Acids Res. 35(Web-Server-Issue): 75-80 (2007) - [j9]Oscar M. Rueda, Ramón Díaz-Uriarte:
Flexible and Accurate Detection of Genomic Copy-Number Changes from aCGH. PLoS Comput. Biol. 3(6) (2007) - 2006
- [j8]Ramón Díaz-Uriarte, Sara Alvarez de Andrés:
Gene selection and classification of microarray data using random forest. BMC Bioinform. 7: 3 (2006) - 2005
- [j7]Fátima Al-Shahrour, Ramón Díaz-Uriarte, Joaquín Dopazo:
Discovering molecular functions significantly related to phenotypes by combining gene expression data and biological information. Bioinform. 21(13): 2988-2993 (2005) - [j6]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 Res. 33(Web-Server-Issue): 616-620 (2005) - [p1]Ramón Díaz-Uriarte:
Supervised Methods with Genomic Data: a Review and Cautionary View. Data Analysis and Visualization in Genomics and Proteomics 2005: 193-214 - 2004
- [j5]Fátima Al-Shahrour, Ramón Díaz-Uriarte, Joaquín Dopazo:
FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes. Bioinform. 20(4): 578-580 (2004) - [j4]Juan M. Vaquerizas, Joaquín Dopazo, Ramón Díaz-Uriarte:
DNMAD: web-based diagnosis and normalization for microarray data. Bioinform. 20(18): 3656-3658 (2004) - [j3]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 Res. 32(Web-Server-Issue): 485-491 (2004) - [c4]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 - [c3]Ramón Díaz-Uriarte:
Variable Selection from Random Forests: Application to Gene Expression Data. Spanish Bioinformatics Conference 2004: 47-52 - [c2]Ramón Díaz-Uriarte, David Casado:
Can we Find Molecular Signatures from Gene Expression Data? Spanish Bioinformatics Conference 2004: 173-178 - 2003
- [j2]Javier Herrero, Ramón Díaz-Uriarte, Joaquín Dopazo:
Gene expression data preprocessing. Bioinform. 19(5): 655-656 (2003) - [j1]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 Res. 31(13): 3461-3467 (2003) - [c1]Fátima Al-Shahrour, Javier Herrero, Álvaro Mateos, Javier Santoyo, Ramón Díaz-Uriarte, Joaquín Dopazo:
Using gene ontology on genome-scale studies to find significant associations of biologically relevant terms to groups of genes. NNSP 2003: 43-52
Coauthor Index
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