Irena Spasic

Summary

Affiliation: University of Manchester Institute of Science and Technology
Country: UK

Publications

  1. ncbi request reprint A flexible measure of contextual similarity for biomedical terms
    I Spasic
    Department of Chemistry, UMIST, Manchester, UK
    Pac Symp Biocomput . 2005
  2. ncbi request reprint Using automatically learnt verb selectional preferences for classification of biomedical terms
    Irena Spasic
    Department of Chemistry, UMIST, Faraday Building, P O Box 88, Sackville Street, Manchester M60 1QD, UK
    J Biomed Inform 37:483-97. 2004
  3. ncbi request reprint Text mining and ontologies in biomedicine: making sense of raw text
    Irena Spasic
    School of Chemistry, The University of Manchester, Sackville Street, PO Box 88, Manchester M60 1QD, UK
    Brief Bioinform 6:239-51. 2005
  4. pmc Facilitating the development of controlled vocabularies for metabolomics technologies with text mining
    Irena Spasic
    Manchester Centre for Integrative Systems Biology, The University of Manchester, 131 Princess Street, Manchester, M1 7ND, UK
    BMC Bioinformatics 9:S5. 2008
  5. doi request reprint KiPar, a tool for systematic information retrieval regarding parameters for kinetic modelling of yeast metabolic pathways
    Irena Spasic
    Manchester Centre for Integrative Systems Biology, The University of Manchester, Manchester, UK
    Bioinformatics 25:1404-11. 2009
  6. ncbi request reprint MaSTerClass: a case-based reasoning system for the classification of biomedical terms
    Irena Spasic
    School of Chemistry, The University of Manchester, Sackville Street, PO Box 88, Manchester M60 1QD, UK
    Bioinformatics 21:2748-58. 2005
  7. ncbi request reprint Terminology-driven mining of biomedical literature
    Goran Nenadic
    Computer Science, University of Salford, Salford M5 4WT, UK
    Bioinformatics 19:938-43. 2003
  8. pmc A text mining approach to the prediction of disease status from clinical discharge summaries
    Hui Yang
    School of Computer Science, University of Manchester, Manchester, UK
    J Am Med Inform Assoc 16:596-600. 2009
  9. doi request reprint A GC-TOF-MS study of the stability of serum and urine metabolomes during the UK Biobank sample collection and preparation protocols
    Warwick B Dunn
    Bioanalytical Sciences Group, School of Chemistry, Manchester Interdiscplinary Biocentre, University of Manchester, 131 Princess Street, Manchester, M1 7ND, UK
    Int J Epidemiol 37:i23-30. 2008
  10. pmc MeMo: a hybrid SQL/XML approach to metabolomic data management for functional genomics
    Irena Spasic
    School of Chemistry, Faraday Building, The University of Manchester, Manchester, M60 1QD, UK
    BMC Bioinformatics 7:281. 2006

Detail Information

Publications10

  1. ncbi request reprint A flexible measure of contextual similarity for biomedical terms
    I Spasic
    Department of Chemistry, UMIST, Manchester, UK
    Pac Symp Biocomput . 2005
    ..Our approach augments the traditional concept of edit distance by elements of linguistic and biomedical knowledge, which together provide flexible selection of contextual features and their comparison...
  2. ncbi request reprint Using automatically learnt verb selectional preferences for classification of biomedical terms
    Irena Spasic
    Department of Chemistry, UMIST, Faraday Building, P O Box 88, Sackville Street, Manchester M60 1QD, UK
    J Biomed Inform 37:483-97. 2004
    ..The most similar candidate class is predicted for the given term. The similarity measure used for this purpose combines contextual, lexical, and syntactic properties of terms...
  3. ncbi request reprint Text mining and ontologies in biomedicine: making sense of raw text
    Irena Spasic
    School of Chemistry, The University of Manchester, Sackville Street, PO Box 88, Manchester M60 1QD, UK
    Brief Bioinform 6:239-51. 2005
    ..The principal link between text and an ontology is terminology, which maps terms to domain-specific concepts. This paper summarises different approaches in which ontologies have been used for text-mining applications in biomedicine...
  4. pmc Facilitating the development of controlled vocabularies for metabolomics technologies with text mining
    Irena Spasic
    Manchester Centre for Integrative Systems Biology, The University of Manchester, 131 Princess Street, Manchester, M1 7ND, UK
    BMC Bioinformatics 9:S5. 2008
    ..However, it is time-consuming and non trivial to construct these resources manually...
  5. doi request reprint KiPar, a tool for systematic information retrieval regarding parameters for kinetic modelling of yeast metabolic pathways
    Irena Spasic
    Manchester Centre for Integrative Systems Biology, The University of Manchester, Manchester, UK
    Bioinformatics 25:1404-11. 2009
    ..It is also suitable for large-scale mining, since multiple reactions and their kinetic parameters can be specified in a single search request, rather than one reaction at a time, which is unsuitable given the size of genome-scale models...
  6. ncbi request reprint MaSTerClass: a case-based reasoning system for the classification of biomedical terms
    Irena Spasic
    School of Chemistry, The University of Manchester, Sackville Street, PO Box 88, Manchester M60 1QD, UK
    Bioinformatics 21:2748-58. 2005
    ..The extracted terms still need to be correctly positioned relative to other terms in the network. Classification as a means of semantic typing represents the first step in updating a semantic network with new terms...
  7. ncbi request reprint Terminology-driven mining of biomedical literature
    Goran Nenadic
    Computer Science, University of Salford, Salford M5 4WT, UK
    Bioinformatics 19:938-43. 2003
    ..Although the knowledge is organized around sets of domain-specific terms, few literature mining systems incorporate deep and dynamic terminology processing...
  8. pmc A text mining approach to the prediction of disease status from clinical discharge summaries
    Hui Yang
    School of Computer Science, University of Manchester, Manchester, UK
    J Am Med Inform Assoc 16:596-600. 2009
    ..CONCLUSIONS The performance achieved was in line with the agreement between human annotators, indicating the potential of text mining for accurate and efficient prediction of disease statuses from clinical discharge summaries...
  9. doi request reprint A GC-TOF-MS study of the stability of serum and urine metabolomes during the UK Biobank sample collection and preparation protocols
    Warwick B Dunn
    Bioanalytical Sciences Group, School of Chemistry, Manchester Interdiscplinary Biocentre, University of Manchester, 131 Princess Street, Manchester, M1 7ND, UK
    Int J Epidemiol 37:i23-30. 2008
    ....
  10. pmc MeMo: a hybrid SQL/XML approach to metabolomic data management for functional genomics
    Irena Spasic
    School of Chemistry, Faraday Building, The University of Manchester, Manchester, M60 1QD, UK
    BMC Bioinformatics 7:281. 2006
    ..The metabolomic data produced need to be structured and annotated in a machine-usable form to facilitate the exploration of the hidden links between the genes and their functions...