Angel Rubio

Summary

Country: Spain

Publications

  1. pmc Quantification of miRNA-mRNA interactions
    Ander Muniategui
    Group of Bioinformatics, CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    PLoS ONE 7:e30766. 2012
  2. pmc Getting DNA copy numbers without control samples
    Maria Ortiz-Estevez
    Group of Bioinformatics, CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Algorithms Mol Biol 7:19. 2012
  3. pmc Development of a novel splice array platform and its application in the identification of alternative splice variants in lung cancer
    Ruben Pio
    Division of Oncology, Center for Applied Medical Research, Pamplona, Spain
    BMC Genomics 11:352. 2010
  4. doi request reprint Integrating tracer-based metabolomics data and metabolic fluxes in a linear fashion via Elementary Carbon Modes
    Jon Pey
    CEIT and TECNUN, University of Navarra, Manuel de Lardizabal 15, 20018 San Sebastian, Spain
    Metab Eng 14:344-53. 2012
  5. pmc Improvements to previous algorithms to predict gene structure and isoform concentrations using Affymetrix Exon arrays
    Miguel A Anton
    CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    BMC Bioinformatics 11:578. 2010
  6. pmc CalMaTe: a method and software to improve allele-specific copy number of SNP arrays for downstream segmentation
    Maria Ortiz-Estevez
    CEIT and TECNUN, University of Navarra, 20018 San Sebastian, Spain
    Bioinformatics 28:1793-4. 2012
  7. doi request reprint Selection of human tissue-specific elementary flux modes using gene expression data
    Alberto Rezola
    Biomedical Engineering Department, CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Bioinformatics 29:2009-16. 2013
  8. doi request reprint Joint analysis of miRNA and mRNA expression data
    Ander Muniategui
    CEIT, University of Navarra, San Sebastian, Spain
    Brief Bioinform 14:263-78. 2013
  9. doi request reprint Identification of alternative splicing events regulated by the oncogenic factor SRSF1 in lung cancer
    Fernando J de Miguel
    Authors Affiliations Division of Oncology, Center for Applied Medical Research CIMA Departments of Histology and Pathology and Biochemistry and Genetics, Schools of Science and Medicine, University of Navarra, Pamplona and CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Cancer Res 74:1105-15. 2014
  10. pmc ACNE: a summarization method to estimate allele-specific copy numbers for Affymetrix SNP arrays
    Maria Ortiz-Estevez
    Group of Bioinformatics, CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Bioinformatics 26:1827-33. 2010

Collaborators

Detail Information

Publications15

  1. pmc Quantification of miRNA-mRNA interactions
    Ander Muniategui
    Group of Bioinformatics, CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    PLoS ONE 7:e30766. 2012
    ..This is not the case using other algorithms.TaLasso is available as Matlab or R code. There is also a web-based tool for human miRNAs at http://talasso.cnb.csic.es/...
  2. pmc Getting DNA copy numbers without control samples
    Maria Ortiz-Estevez
    Group of Bioinformatics, CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Algorithms Mol Biol 7:19. 2012
    ..abstract:..
  3. pmc Development of a novel splice array platform and its application in the identification of alternative splice variants in lung cancer
    Ruben Pio
    Division of Oncology, Center for Applied Medical Research, Pamplona, Spain
    BMC Genomics 11:352. 2010
    ..In this study, a novel splice array approach was developed, including the design of a high-density oligonucleotide array, a labeling procedure, and an algorithm to identify splice events...
  4. doi request reprint Integrating tracer-based metabolomics data and metabolic fluxes in a linear fashion via Elementary Carbon Modes
    Jon Pey
    CEIT and TECNUN, University of Navarra, Manuel de Lardizabal 15, 20018 San Sebastian, Spain
    Metab Eng 14:344-53. 2012
    ..Finally, as linearity is the hallmark of our approach, its importance is discussed at a methodological, computational and theoretical level and illustrated with a practical application in the field of Isotope Labeling Experiments...
  5. pmc Improvements to previous algorithms to predict gene structure and isoform concentrations using Affymetrix Exon arrays
    Miguel A Anton
    CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    BMC Bioinformatics 11:578. 2010
    ..In addition, gene structure prediction, i.e., the correspondence between probes and novel isoforms, is a field which is still unexplored...
  6. pmc CalMaTe: a method and software to improve allele-specific copy number of SNP arrays for downstream segmentation
    Maria Ortiz-Estevez
    CEIT and TECNUN, University of Navarra, 20018 San Sebastian, Spain
    Bioinformatics 28:1793-4. 2012
    ..CalMaTe applies to any ASCNs regardless of preprocessing method and microarray technology, e.g. Affymetrix and Illumina...
  7. doi request reprint Selection of human tissue-specific elementary flux modes using gene expression data
    Alberto Rezola
    Biomedical Engineering Department, CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Bioinformatics 29:2009-16. 2013
    ..To face this issue, different optimization-based techniques have been recently introduced and their application to human metabolism is promising...
  8. doi request reprint Joint analysis of miRNA and mRNA expression data
    Ander Muniategui
    CEIT, University of Navarra, San Sebastian, Spain
    Brief Bioinform 14:263-78. 2013
    ..Here, we review these methods that combine both expression and sequence-based putative targets to predict miRNA targets...
  9. doi request reprint Identification of alternative splicing events regulated by the oncogenic factor SRSF1 in lung cancer
    Fernando J de Miguel
    Authors Affiliations Division of Oncology, Center for Applied Medical Research CIMA Departments of Histology and Pathology and Biochemistry and Genetics, Schools of Science and Medicine, University of Navarra, Pamplona and CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Cancer Res 74:1105-15. 2014
    ..In conclusion, using a novel analytical tool, we have identified new splicing events regulated by the oncogenic splicing factor SRSF1 in lung cancer...
  10. pmc ACNE: a summarization method to estimate allele-specific copy numbers for Affymetrix SNP arrays
    Maria Ortiz-Estevez
    Group of Bioinformatics, CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Bioinformatics 26:1827-33. 2010
    ..Therefore, we have developed a summarization method that estimates high-quality allele-specific CNs...
  11. doi request reprint Genome-wide proximal promoter analysis and interpretation
    Elizabeth Guruceaga
    CEIT, Centro de Estudios e Investigaciones Tecnicas de Gipuzkoa, San Sebastian, Spain
    Methods Mol Biol 593:157-74. 2010
    ..The functional and bibliographic interpretation of the results improves our biological insight into the regulatory mechanisms involved in a microarray experiment...
  12. pmc Integrating gene and protein expression data with genome-scale metabolic networks to infer functional pathways
    Jon Pey
    CEIT and TECNUN, University of Navarra, Manuel de Lardizabal 15, 20018 San Sebastian, Spain
    BMC Syst Biol 7:134. 2013
    ..To continue with this progress, it is essential to efficiently integrate experimental data into metabolic modeling...
  13. doi request reprint Do elementary flux modes combine linearly at the "atomic" level?: integrating tracer-based metabolomics data and elementary flux modes
    Jon Pey
    CEIT and TECNUN, University of Navarra, Manuel de Lardizabal, San Sebastian, Spain
    Biosystems 105:140-6. 2011
    ..As a result of our analysis, we concluded that in general the concept of EFMs needs to be redefined at the atomic level for the modeling of ILEs. For this purpose, the concept of Elementary Carbon Modes (ECMs) is introduced...
  14. doi request reprint Integrative oncogenomic analysis of microarray data in hematologic malignancies
    Jose A Martinez-Climent
    Division of Oncology, Center for Applied Medical Research, University of Navarra, Pamplona, Spain
    Methods Mol Biol 576:231-77. 2010
    ..We also present the basic aspects of these methodologies and their present and future application in clinical oncology...
  15. pmc SPACE: an algorithm to predict and quantify alternatively spliced isoforms using microarrays
    Miguel A Anton
    CEIT and TECNUN, University of Navarra, San Sebastian, Spain
    Genome Biol 9:R46. 2008
    ..The results presented here show its robustness and accuracy for real and simulated data...