Barend Mons

Summary

Affiliation: Erasmus MC
Country: The Netherlands

Publications

  1. pmc Which gene did you mean?
    Barend Mons
    Biosemantics Group Rotterdam, Department of Medical Informatics, Erasmus MC University Medical Center Rotterdam, P, O, Box 1738, NL 3000 DR Rotterdam, The Netherlands
    BMC Bioinformatics 6:142. 2005
  2. pmc Calling on a million minds for community annotation in WikiProteins
    Barend Mons
    Erasmus Medical Centre, Department of Medical Informatics, Rotterdam, The Netherlands
    Genome Biol 9:R89. 2008
  3. ncbi request reprint Evaluation of techniques for increasing recall in a dictionary approach to gene and protein name identification
    Martijn J Schuemie
    Department of Medical Informatics, Erasmus University Medical Center Rotterdam, P O Box 1738, 3000 DR, Rotterdam, The Netherlands
    J Biomed Inform 40:316-24. 2007
  4. ncbi request reprint Online tools to support literature-based discovery in the life sciences
    Marc Weeber
    Department of Medical Informatics, Erasmus MC University Medical Center Rotterdam, PO Box 1738, 3000 DR Rotterdam, The Netherlands
    Brief Bioinform 6:277-86. 2005
  5. pmc Novel protein-protein interactions inferred from literature context
    Herman H H B M van Haagen
    Biosemantics Association, Department of Human Genetics, Leiden University Medical Center, Leiden, and Department of Medical Informatics, Erasmus University Medical Center, Rotterdam, The Netherlands
    PLoS ONE 4:e7894. 2009
  6. pmc Literature-aided meta-analysis of microarray data: a compendium study on muscle development and disease
    Rob Jelier
    Department of Medical Informatics, Erasmus MC University Medical Center, Rotterdam, The Netherlands
    BMC Bioinformatics 9:291. 2008
  7. pmc Thesaurus-based disambiguation of gene symbols
    Bob J A Schijvenaars
    Department of Medical Informatics, Erasmus University Medical Center Rotterdam, P O Box 1738, 3000 DR Rotterdam, The Netherlands
    BMC Bioinformatics 6:149. 2005
  8. pmc Text-derived concept profiles support assessment of DNA microarray data for acute myeloid leukemia and for androgen receptor stimulation
    Rob Jelier
    Department of Medical Informatics, Erasmus MC University Medical Center, Rotterdam, The Netherlands
    BMC Bioinformatics 8:14. 2007
  9. ncbi request reprint Contextual annotation of web pages for interactive browsing
    Erik van Mulligen
    Dept of Medical Informatics, Erasmus University Medical Center Rotterdam, PO Box 1738, 3000 DR Rotterdam, The Netherlands
    Stud Health Technol Inform 107:94-8. 2004
  10. ncbi request reprint Databases for knowledge discovery. Examples from biomedicine and health care
    Jan H van Bemmel
    Department of Medical Informatics, Erasmus University and Erasmus MC Rotterdam, Dr Molewaterplein 50, P O Box 1738, 3000 DR Rotterdam, The Netherlands
    Int J Med Inform 75:257-67. 2006

Detail Information

Publications12

  1. pmc Which gene did you mean?
    Barend Mons
    Biosemantics Group Rotterdam, Department of Medical Informatics, Erasmus MC University Medical Center Rotterdam, P, O, Box 1738, NL 3000 DR Rotterdam, The Netherlands
    BMC Bioinformatics 6:142. 2005
    ..This commentary proposes to make semantic tagging an integral process to electronic publishing...
  2. pmc Calling on a million minds for community annotation in WikiProteins
    Barend Mons
    Erasmus Medical Centre, Department of Medical Informatics, Rotterdam, The Netherlands
    Genome Biol 9:R89. 2008
    ..We call on a 'million minds' to annotate a 'million concepts' and to collect facts from the literature with the reward of collaborative knowledge discovery. The system is available for beta testing at http://www.wikiprofessional.org...
  3. ncbi request reprint Evaluation of techniques for increasing recall in a dictionary approach to gene and protein name identification
    Martijn J Schuemie
    Department of Medical Informatics, Erasmus University Medical Center Rotterdam, P O Box 1738, 3000 DR, Rotterdam, The Netherlands
    J Biomed Inform 40:316-24. 2007
    ..Application of 23 spelling variation rules to the combined dictionaries further increased recall. However, many rules appeared to have no effect and some appear to have a detrimental effect on precision...
  4. ncbi request reprint Online tools to support literature-based discovery in the life sciences
    Marc Weeber
    Department of Medical Informatics, Erasmus MC University Medical Center Rotterdam, PO Box 1738, 3000 DR Rotterdam, The Netherlands
    Brief Bioinform 6:277-86. 2005
    ..This paper presents an overview of recent LBD research and discusses methodology, results and online tools that are available to the scientific community...
  5. pmc Novel protein-protein interactions inferred from literature context
    Herman H H B M van Haagen
    Biosemantics Association, Department of Human Genetics, Leiden University Medical Center, Leiden, and Department of Medical Informatics, Erasmus University Medical Center, Rotterdam, The Netherlands
    PLoS ONE 4:e7894. 2009
    ..Our framework can be used for prioritizing potential interaction partners, hitherto undiscovered, for follow-up studies and to aid the generation of accurate protein interaction maps...
  6. pmc Literature-aided meta-analysis of microarray data: a compendium study on muscle development and disease
    Rob Jelier
    Department of Medical Informatics, Erasmus MC University Medical Center, Rotterdam, The Netherlands
    BMC Bioinformatics 9:291. 2008
    ....
  7. pmc Thesaurus-based disambiguation of gene symbols
    Bob J A Schijvenaars
    Department of Medical Informatics, Erasmus University Medical Center Rotterdam, P O Box 1738, 3000 DR Rotterdam, The Netherlands
    BMC Bioinformatics 6:149. 2005
    ..Massive text mining of the biological literature holds great promise of relating disparate information and discovering new knowledge. However, disambiguation of gene symbols is a major bottleneck...
  8. pmc Text-derived concept profiles support assessment of DNA microarray data for acute myeloid leukemia and for androgen receptor stimulation
    Rob Jelier
    Department of Medical Informatics, Erasmus MC University Medical Center, Rotterdam, The Netherlands
    BMC Bioinformatics 8:14. 2007
    ..We assign a weight to each concept in the profile based on a likelihood ratio measure. Gene concept profiles can then be clustered to find related genes and other concepts...
  9. ncbi request reprint Contextual annotation of web pages for interactive browsing
    Erik van Mulligen
    Dept of Medical Informatics, Erasmus University Medical Center Rotterdam, PO Box 1738, 3000 DR Rotterdam, The Netherlands
    Stud Health Technol Inform 107:94-8. 2004
    ..The new approach merges the searching and browsing into one combined "read-and-search" mode and alleviates the shift users are normally forced to between searching and reading...
  10. ncbi request reprint Databases for knowledge discovery. Examples from biomedicine and health care
    Jan H van Bemmel
    Department of Medical Informatics, Erasmus University and Erasmus MC Rotterdam, Dr Molewaterplein 50, P O Box 1738, 3000 DR Rotterdam, The Netherlands
    Int J Med Inform 75:257-67. 2006
    ..The examples that we shall offer are representative for using computers in scientific research in general, but in medical and health informatics in particular...
  11. ncbi request reprint Assignment of protein function and discovery of novel nucleolar proteins based on automatic analysis of MEDLINE
    Martijn Schuemie
    Biosemantics Group, Medical Informatics Department, Erasmus Medical Center, Rotterdam, The Netherlands
    Proteomics 7:921-31. 2007
    ..Finally, by clustering the functional properties of the established nucleolar proteins, we predicted novel nucleolar proteins. Subsequently, nonproteomics studies confirmed the predictions of previously unidentified nucleolar proteins...
  12. ncbi request reprint Word sense disambiguation in the biomedical domain: an overview
    Martijn J Schuemie
    Biosemantics Group, Medical Informatics Department, Erasmus Medical Center, Dr Molewaterplein 50, 3015 GE, Rotterdam, The Netherlands
    J Comput Biol 12:554-65. 2005
    ..WSD algorithms should preferably be able to take into account both known and unknown senses of a word. Without WSD, automatic metaanalysis of large corpora of text will be error prone...