Robert Stevens (scientist)

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Robert Stevens
DrRobertDavidStevens.jpg
Robert Stevens
Born
Robert David Stevens

(1965-02-11) 11 February 1965 (age 58)
Nationality British
Alma mater
Known forTAMBIS [1] [2] [3]
Scientific career
Fields
Institutions University of Manchester
Thesis Principles for the design of auditory interfaces to present complex information to blind people  (1996)
Doctoral advisor Alistair Edwards [8]
Website www.research.manchester.ac.uk/portal/robert.stevens.html

Robert David Stevens (born 1965) is a professor of bio-health informatics. [9] [10] and former Head of Department of Computer Science at The University of Manchester [11]

Contents

Education

Stevens gained his Bachelor of Science degree in biochemistry from the University of Bristol in 1986, [12] a Master of Science degree in bioinformatics in 1991 and a DPhil in Computer Science in 1996, both from the University of York. [8]

Career and research

Stevens current research interests [7] [13] [14] [15] are the construction of biological ontologies, [16] [17] such as the Gene Ontology, [18] [19] [20] [21] and the reconciliation of semantic heterogeneity [22] in bioinformatics. [23] [24] This research has been funded by the Engineering and Physical Sciences Research Council (EPSRC), [25] [26] Biotechnology and Biological Sciences Research Council (BBSRC) [27] and the European Union. [28]

Stevens has been Principal investigator for a range of research projects including Ondex, [29] [30] ComparaGrid, [31] SWAT (Semantic Web Authoring Tool) [25] and the Ontogenesis Network. [25]

Stevens served as Program Chair and co-organiser for the International Conference on Biomedical Ontology (ICBO) 2012 [32] and co-founded the UK Ontology Network. [33] He has also participated in the Health care and Life Sciences Interest Group (HCLSIG) of the World Wide Web Consortium (W3C). [34] Stevens is currently on the editorial board of the Journal of Biomedical Semantics. [35] Stevens started as a lecturer, then became a senior lecturer, Reader and became a Professor in August 2013.

Stevens has taught on several undergraduate and postgraduate courses on software engineering, databases, bioinformatics and runs introductory and advanced courses on the Web Ontology Language. He has been the main doctoral advisor to five successful PhD students [36] [37] [38] [39] [40] and co-supervised several others. [41] [42] [43]

Since July 2016 he has served as Head of Department of Computer Science at The University of Manchester. [11]

Related Research Articles

The Gene Ontology (GO) is a major bioinformatics initiative to unify the representation of gene and gene product attributes across all species. More specifically, the project aims to: 1) maintain and develop its controlled vocabulary of gene and gene product attributes; 2) annotate genes and gene products, and assimilate and disseminate annotation data; and 3) provide tools for easy access to all aspects of the data provided by the project, and to enable functional interpretation of experimental data using the GO, for example via enrichment analysis. GO is part of a larger classification effort, the Open Biomedical Ontologies, being one of the Initial Candidate Members of the OBO Foundry.

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Biomedical text mining refers to the methods and study of how text mining may be applied to texts and literature of the biomedical domain. As a field of research, biomedical text mining incorporates ideas from natural language processing, bioinformatics, medical informatics and computational linguistics. The strategies in this field have been applied to the biomedical literature available through services such as PubMed.

The Open Biological and Biomedical Ontologies (OBO) Foundry is a group of people dedicated to build and maintain ontologies related to the life sciences. The OBO Foundry establishes a set of principles for ontology development for creating a suite of interoperable reference ontologies in the biomedical domain. Currently, there are more than a hundred ontologies that follow the OBO Foundry principles.

<span class="mw-page-title-main">Carole Goble</span> British computer scientist

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<span class="mw-page-title-main">Lawrence Hunter</span>

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References

  1. ↑ Goble, C. A.; Stevens, R.; Ng, G.; Bechhofer, S.; Paton, N. W.; Baker, P. G.; Peim, M.; Brass, A. (2001). "Transparent access to multiple bioinformatics information sources" (PDF). IBM Systems Journal. 40 (2): 532–551. doi:10.1147/sj.402.0532.
  2. ↑ Stevens, R.; Baker, P.; Bechhofer, S.; Ng, G.; Jacoby, A.; Paton, N. W.; Goble, C. A.; Brass, A. (2000). "TAMBIS: Transparent Access to Multiple Bioinformatics Information Sources". Bioinformatics. 16 (2): 184–185. doi: 10.1093/bioinformatics/16.2.184 . PMID   10842744.
  3. ↑ Baker, P. G.; Brass, A.; Bechhofer, S.; Goble, C.; Paton, N.; Stevens, R. (1998). "TAMBIS--Transparent Access to Multiple Bioinformatics Information Sources". Proceedings. International Conference on Intelligent Systems for Molecular Biology. 6: 25–34. PMID   9783206.
  4. ↑ Field, D.; Garrity, G.; Gray, T.; Morrison, N.; Selengut, J.; Sterk, P.; Tatusova, T.; Thomson, N.; Allen, M. J.; Angiuoli, S. V.; Ashburner, M.; Axelrod, N.; Baldauf, S.; Ballard, S.; Boore, J.; Cochrane, G.; Cole, J.; Dawyndt, P.; De Vos, P.; Depamphilis, C.; Edwards, R.; Faruque, N.; Feldman, R.; Gilbert, J.; Gilna, P.; Glöckner, F. O.; Goldstein, P.; Guralnick, R.; Haft, D.; et al. (2008). "The minimum information about a genome sequence (MIGS) specification". Nature Biotechnology . 26 (5): 541–7. doi:10.1038/nbt1360. PMC   2409278 . PMID   18464787.
  5. ↑ Goble, C.; Harper, S.; Stevens, R. (2000). "The travails of visually impaired web travellers" (PDF). Proceedings of the eleventh ACM on Hypertext and hypermedia - HYPERTEXT '00. p. 1. doi:10.1145/336296.336304. ISBN   978-1581132274. S2CID   7099946.
  6. ↑ Stevens, Robert (2007). "Day in the life of a disabled(?) scientist: Sightless in Science" (PDF). The Biochemist. doi: 10.1042/BIO02903030 . Retrieved 20 June 2013.
  7. 1 2 Robert Stevens publications indexed by Google Scholar OOjs UI icon edit-ltr-progressive.svg
  8. 1 2 Stevens, Robert David (1996). Principles for the design of auditory interfaces to present complex information to blind people (PDF) (Ph.D. thesis). University of York. OCLC   931328170. EThOS   uk.bl.ethos.319718.
  9. ↑ "Professor Robert Stevens, research profile - personal details (The University of Manchester)". Archived from the original on 28 December 2011. Retrieved 10 June 2012.
  10. ↑ Klein, J.; Eales, J.; Zürbig, P.; Vlahou, A.; Mischak, H.; Stevens, R. (2013). "Proteasix: A tool for automated and large-scale prediction of proteases involved in naturally occurring peptide generation". Proteomics. 13 (7): 1077–1082. doi:10.1002/pmic.201200493. PMID   23348921. S2CID   8604093.
  11. 1 2 "Weekly newsletter for the School of CS". 11 July 2016. Archived from the original on 3 October 2019.
  12. ↑ Meng, Y. B.; Stevens, R. D.; China, W.; McGill, S.; Ashburner, M. (1988). "Five glycyl tRNA genes within the noc gene complex of Drosophila melanogaster". Nucleic Acids Research. 16 (14): 7189. doi:10.1093/nar/16.14.7189. PMC   338370 . PMID   3136440.
  13. ↑ Robert Stevens at DBLP Bibliography Server OOjs UI icon edit-ltr-progressive.svg
  14. ↑ Robert Stevens publications indexed by the Scopus bibliographic database. (subscription required)
  15. ↑ Robert Stevens author profile page at the ACM Digital Library OOjs UI icon edit-ltr-progressive.svg
  16. ↑ Malone, J.; Brown, A.; Lister, A. L.; Ison, J.; Hull, D.; Parkinson, H.; Stevens, R. (2014). "The Software Ontology (SWO): A resource for reproducibility in biomedical data analysis, curation and digital preservation". Journal of Biomedical Semantics. 5: 25. doi: 10.1186/2041-1480-5-25 . PMC   4098953 . PMID   25068035.
  17. ↑ Lord, P.; Stevens, R. (2010). Friedberg, Iddo (ed.). "Adding a Little Reality to Building Ontologies for Biology". PLOS ONE. 5 (9): e12258. Bibcode:2010PLoSO...512258L. doi: 10.1371/journal.pone.0012258 . PMC   2933225 . PMID   20838431.
  18. ↑ Jupp, S.; Stevens, R.; Hoehndorf, R. (2012). "Logical Gene Ontology Annotations (GOAL): Exploring gene ontology annotations with OWL". Journal of Biomedical Semantics. 3 (Suppl 1): S3. doi: 10.1186/2041-1480-3-S1-S3 . PMC   3337258 . PMID   22541594.
  19. ↑ Kalankesh, L. R.; Stevens, R.; Brass, A. (2012). "The language of gene ontology: A Zipf's law analysis". BMC Bioinformatics. 13: 127. doi: 10.1186/1471-2105-13-127 . PMC   3473240 . PMID   22676436.
  20. ↑ Lord, P. W.; Stevens, R. D.; Brass, A.; Goble, C. A. (2003). "Semantic similarity measures as tools for exploring the gene ontology" (PDF). Pacific Symposium on Biocomputing: 601–612. doi:10.1142/9789812776303_0056. ISBN   978-981-238-217-7. PMID   12603061.
  21. ↑ Wroe, C. J.; Stevens, R.; Goble, C. A.; Ashburner, M. (2003). "A methodology to migrate the gene ontology to a description logic environment using DAML+OIL". Pacific Symposium on Biocomputing: 624–635. CiteSeerX   10.1.1.121.5880 . doi:10.1142/9789812776303_0058. ISBN   978-981-238-217-7. PMID   12603063.
  22. ↑ "Semantic Heterogeneity in Bioinformatics Resources". Cs.man.ac.uk. Retrieved 10 January 2019.
  23. ↑ Lord, P. W.; Stevens, R. D.; Brass, A.; Goble, C. A. (2003). "Investigating semantic similarity measures across the Gene Ontology: The relationship between sequence and annotation". Bioinformatics. 19 (10): 1275–1283. doi: 10.1093/bioinformatics/btg153 . PMID   12835272.
  24. ↑ Hastings, J.; Magka, D.; Batchelor, C.; Duan, L.; Stevens, R.; Ennis, M.; Steinbeck, C. (2012). "Structure-based classification and ontology in chemistry". Journal of Cheminformatics. 4: 8. doi: 10.1186/1758-2946-4-8 . PMC   3361486 . PMID   22480202.
  25. 1 2 3 "Grants awarded to Robert Stevens by the EPRSC" . Retrieved 21 June 2012.
  26. ↑ "Archived copy". Archived from the original on 22 February 2015. Retrieved 22 February 2015.{{cite web}}: CS1 maint: archived copy as title (link)
  27. ↑ "Investigator / Supervisor details - Robert Stevens @ BBSRC" . Retrieved 21 June 2012.
  28. ↑ Duck, G.; Nenadic, G.; Brass, A.; Robertson, D. L.; Stevens, R. (2013). "BioNerDS: Exploring bioinformatics' database and software use through literature mining". BMC Bioinformatics. 14: 194. doi: 10.1186/1471-2105-14-194 . PMC   3693927 . PMID   23768135.
  29. ↑ Kohler, J.; Baumbach, J.; Taubert, J.; Specht, M.; Skusa, A.; Rüegg, A.; Rawlings, C.; Verrier, P.; Philippi, S. (2006). "Graph-based analysis and visualization of experimental results with ONDEX". Bioinformatics. 22 (11): 1383–1390. doi: 10.1093/bioinformatics/btl081 . PMID   16533819.
  30. ↑ "BBSRC Award details BB/F006012/1: Ondex".
  31. ↑ "BBSRC Award details BBS/B/17131: ComparaGrid - enabling GRID technologies for comparative genomics".
  32. ↑ "ICBO FOIS 2012" . Retrieved 19 June 2012.
  33. ↑ UK Ontology Network http://www.ukontology.org/
  34. ↑ "Re: introductions: eric miller, w3c from Robert Stevens on 2005-12-01 (public-semweb-lifesci@w3.org from December 2005)". Lists.w3.org. Retrieved 10 January 2019.
  35. ↑ "Journal of Biomedical Semantics". Journal of Biomedical Semantics. Retrieved 10 January 2019.
  36. ↑ Egaña Aranguren, Mikel (2009). Role and application of ontology design patterns in bio-ontologies (PhD thesis). University of Manchester.
  37. ↑ Brenchley, Rachel (2009). Towards automated annotation of protein phosphatases (PhD thesis). University of Manchester. OCLC   855121149. EThOS   uk.bl.ethos.509724}.
  38. ↑ Brown, Andrew J. (2007). Non-visual interaction with graphs (PhD thesis). University of Manchester. Archived from the original on 3 February 2014.
  39. ↑ Fisher, Paul Ryan (2009). Towards a systematic approach to the large-scale analysis of genotype-phenotype correlations (PhD thesis). University of Manchester. OCLC   711956205. EThOS   uk.bl.ethos.516331.
  40. ↑ Hull, Duncan (2008). Semantic matching of bioinformatic web services (PhD thesis). University of Manchester. OCLC   1064135556. EThOS   uk.bl.ethos.497578.
  41. ↑ Yesilada, Yeliz (2005). Annotation and transformation of web pages to improve mobility for visually impaired users (Ph.D. thesis). University of Manchester. Copac   36711980.
  42. ↑ Zhao, Jun (2007). Conceptual model for e-science provenance (PDF) (PhD thesis). University of Manchester. Archived from the original (PDF) on 6 October 2012.
  43. ↑ "Prof Robert Stevens - The University of Manchester". Research.manchester.ac.uk. Retrieved 10 January 2019.
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Preceded by Head of Department of Computer Science, University of Manchester
2016–present		Incumbent
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