Publications

Full list below, or see these incomplete external lists:

Books

  1. H. Cunningham, D. Maynard, K. Bontcheva, V. Tablan, N. Aswani, I. Roberts, G. Gorrell, A. Funk, A. Roberts, D. Damljanovic, et al., Text processing with GATE version 6. University of Sheffield, 2011. ISBN 978-0956599315.

Journal papers and chapters

  1. A. Roberts, "Language, Structure, and Reuse in the Electronic Health Record," AMA Journal of Ethics. March 2017;19(3): 281-288.
  2. R. Jackson, R. Patel, N. Jayatilleke, A. Kolliakou, M. Ball, G. Gorrell, A. Roberts, R. Dobson, R. Stewart, "Natural Language Processing to Extract Symptoms of Severe Mental Illness from Clinical Text: The Clinical Record Interactive Search Comprehensive Data Extraction (CRIS-CODE) Project,"BMJ Open. Accepted for publication 2016.
  3. J. Das-Munshi, M. Ashworth, F. Gaughran, S. Hull, C. Morgan, J. Nazroo, A. Roberts, D. Rose, P. Schofield, R. Stewart, G. Thornicroft, M. Prince, "Ethnicity and cardiovascular health inequalities in people with severe mental illnesses: protocol for the E-CHASM study," Social Psychiatry and Psychiatric Epidemiology, 2016 Apr; 51(4):627-38.
  4. R. Patel, N. Jayatilleke, M. Broadbent, C.-K. Chang, N. Foskett, G. Gorrell, R. D. Hayes, R. Jackson, C. Johnston, H. Shetty, A. Roberts, P. McGuire and R.Stewart, "Negative symptoms in schizophrenia: a study in a large clinical sample of patients using a novel automated method," BMJ Open, vol. 5, no. 9, p. e007619, 2015
  5. G. Kadra, R. Stewart, H. Shetty, R. Jackson, M. Greenwood, A. Roberts, C.-K. Chang, J. MacCabe, and R. Hayes, "Extracting antipsychotic polypharmacy data from electronic health records: developing and evaluating a novel process," BMC Psychiatry, vol. 15, no. 1, p. 166, 2015
  6. H. Cunningham, V. Tablan, A. Roberts, and K. Bontcheva, "Getting more out of biomedical documents with gates full lifecycle open source text analytics," PLoS Comput Biol, vol. 9, no. 2, p. e1002854, 2013
  7. A. C. Fernandes, D. Cloete, M. T. Broadbent, R. D. Hayes, C.-K. Chang, R. G. Jackson, A. Roberts, J. Tsang, M. Soncul, J. Liebscher, et al., "Development and evaluation of a de-identification procedure for a case register sourced from mental health electronic records," BMC medical informatics and decision making, vol. 13, no. 1, p. 71, 2013
  8. H. Gurulingappa, A. M. Rajput, A. Roberts, J. Fluck, M. Hofmann-Apitius, and L. Toldo, "Development of a benchmark corpus to support the automatic extraction of drug-related adverse effects from medical case reports," Journal of Biomedical Informatics, vol. 45, no. 5, pp. 885-892, 2012
  9. P. Harms, K. Smith, A. Aschenbrenner, W. Pempe, M. Hedges, A. Roberts, B. Acs, and T. Blanke, "The quality in quantity-enhancing text-based research," in Data Driven e-Science, pp. 265-276, Springer, 2011
  10. M. Johansson, A. Roberts, D. Chen, Y. Li, M. Delahaye-Sourdeix, et al., "Using prior information from the medical literature in GWAS of oral cancer identifies novel susceptibility variant on chromosome 4-the AdAPT method," PLoS ONE, vol. 7, no. 5, p. e36888, 2012
  11. A. Roberts, R. Gaizauskas, M. Hepple, G.Demetriou, Y. Guo, I. Roberts, and A. Setzer, "Building a semantically annotated corpus of clinical texts," Journal of Biomedical Informatics, vol. 42, pp. 950-66, October 2009
  12. A. Roberts, R. Gaizauskas, M. Hepple, and Y. Guo, "Mining clinical relationships from patient narratives," BMC Bioinformatics, vol. 9 Suppl 11, November 2008
  13. C. Wroe, R. Stevens, C. Goble, A. Roberts, and M. Greenwood, "A suite of DAML+OIL Ontologies to Describe Bioinformatics Web Services and Data," International Journal of Cooperative Information Systems, vol. 12, pp. 197-224, June 2003
  14. J. Rogers, C. Wroe, A. Roberts, A. Swallow, D. Stables, J. Cantrill, and A. Rector, "Automated quality checks on repeat prescribing," British Journal of General Practice, vol. 53, pp. 838-844, November 2003

Conference and workshop papers

  1. G. Gorrell, S. Oduola, A. Roberts, T. Craig, C. Morgan, R. Stewart "Identifying First Episodes of Psychosis in Psychiatric Patient Records", Proceedings of the 15th Workshop on Biomedical Natural Language Processing, pages 196 - 205, (Berlin, Germany), 2016
  2. A. Roberts, "Engineering and methodological issues in deploying nlp," in Current Perspectives on NLP for Electronic Medical Records, panel at Medinfo 2015, (Sao Paulo, Brazil), August 2015
  3. A. Roberts and R. Stewart, "Mining the patient record to support mental health research," in eHealth-Enabled Clinical Data Reuse Workshop at Medinfo 2015 (S. Meystre, ed.), (Sao Paulo, Brazil), August 2015
  4. A. Roberts, "Developing mental health research using routine health data and natural language processing," in Proceedings of The Farr Institute International Conference 2015, (St. Andrews, UK), 2015
  5. H. Tissot, A. Roberts, L. Derczynski, G. Gorrell, and M. D. Del Fabro, "Analysis of temporal expressions annotated in clinical notes," in Proceedings 11th Joint ACL-ISO Workshop on Interoperable Semantic Annotation (isa-11), p. 93, 2015
  6. H. Tissot, G. Gorrell, A. Roberts, L. Derczynski, and M. D. D. Fabro, "Ufprsheffield: Contrasting rule-based and support vector machine approaches to time expression identification in clinical tempeval," in Proceedings of the 9th International Workshop on Semantic Evaluation (SemEval 2015), (Denver, Colorado), pp. 835-839, Association for Computational Linguistics, June 2015
  7. H. Mller, A. Hanbury, A. Roberts, K. Pentchev, and V. Momtchev, "Khresmoi: semantics in medical search," in ECSW workshop on EU funded projects, 2014
  8. G. Gorrell, R. Jackson, A. Roberts, and R. Stewart, "Finding negative symptoms of schizophrenia in patient records," Proc NLP Med Biol (NLPMedBio), Recent Adv Nat Lang Process (RANLP), Hissar, Bulg, pp. 9-17, 2013
  9. N. Aswani, T. Beckers, E. Birngruber, C. Boyer, A. Burner, et al., "Khresmoi professional: Multilingual semantic search for medical professionals," in Proceedings of the ACM SIGIR Workshop on Health Search and Discovery: Helping Users and Advancing Medicine, (Cambridge, UK), pp. 31-34, Microsoft Research, Microsoft Research, 2013
  10. N. Aswani, T. Beckers, E. Birngruber, C. Boyer, A. Burner, et al., "Khresmoi - multilingual semantic search of medical text and images," in MEDINFO 2013 - Proceedings of the 14th World Congress on Medical and Health Informatics (C. Lehmann, E. Ammenwerth, and C. Nhr, eds.), vol. 192 of Studies in Health Technology and Informatics, (Amsterdam, Netherlands), pp. 1266-1266, International Medical Informatics Association,
  11. IOS Press, 2013
  12. N. Aswani, T. Beckers, E. Birngruber, C. Boyer, A. Burner, et al., "Khresmoi: Multimodal multilingual medical information search," in Proceedings of the 24th International Conference of the European Federation for Medical Informatics, 2012
  13. G. Georgiev, K. Ganchev, V. Momtchev, D. Peychev, P. Nakov, and A. Roberts, "Tunable domain-independent event extraction in the mira framework," BioNLP 2009: Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing: Shared Task, p. 95, 2009
  14. M. Johansson, Y. Li, J. Wakefield, M. Greenwood, T. Heitz, I. Roberts, H. Cunningham, P. Brennan, A. Roberts, and J. Mckay, "Using prior information attained from the literature to improve ranking in genome wide association studies," in The American Society of Human Genetics 59th Annual Meeting, (Honolulu, Hawaii, USA), October 2009
  15. A. Roberts, R. Gaizauskas, and M. Hepple, "Extracting clinical relationships from patient narratives," in Proceedings of the Workshop on BioNLP 2008, (Columbus, OH, USA), Association for Computational Linguistics, June 2008
  16. G. Demetriou, R. Gaizauskas, H. Sun, and A. Roberts, "Annalist - annotation alignment and scoring tool," in Proceedings of the Sixth International Conference on Language Resources and Evaluation, LREC 2008, (Marrakech, Morocco), ELRA, May 2008
  17. A. Roberts, R. Gaizauskas, M. Hepple, G. Demetriou, Y. Guo, A. Setzer, and I. Roberts, "Semantic annotation of clinical text: The CLEF corpus," in Proceedings of Building and evaluating resources for biomedical text mining: workshop at LREC 2008, (Marrakech, Morocco), May 2008
  18. A. Roberts, R. Gaizauskas, M. Hepple, and Y. Guo, "Combining terminology resources and statistical methods for entity recognition: an evaluation," in Proceedings of the Sixth International Conference on Language Resources and Evaluation, LREC 2008, (Marrakech, Morocco), May 2008
  19. M. Hepple, A. Roberts, R. Gaizauskas, "Text mining and cancer informatics." Poster: NCRI Informatics - caBIG Joint Conference, July 2007
  20. A. Roberts, R. Gaizauskas, M. Hepple, N. Davis, G. Demetriou, Y. Guo, J. S. Kola, I. Roberts, A. Setzer, A. Tapuria, and B. Wheeldin, "The CLEF Corpus: Semantic Annotation of Clinical Text," in American Medical Informatics Association Annual Symposium 2007 Proceedings. Biomedical and Health Informatics: From Foundations to Applications to Policy) (J. M. Teich, J. Suermondt, and G. Hripcsak, eds.), (Chicago, IL, USA), pp. 625-629, American Medical Informatics Association, November 2007
  21. A. Roberts, "Learning Meronyms from Biomedical Text," in Association of Computational Linguistics 2005, Proceedings of the Student Research Workshop (C. Callison-Burch and S. Wan, eds.), (Ann Arbor, Michigan), pp. 49-54, ACL, June 2005
  22. A. Roberts, "Learning Parts and Wholes from Biomedical Texts," in Proceedings of the 8th Research Colloquium of the UK special-interest group in Computational Linguistics (CLUK-05), (Manchester, UK), pp. 63-70, CLUK, January 2005
  23. M. A. Greenwood, M. Stevenson, Y. Guo, H. Harkema, and A. Roberts, "Automatically Acquiring a Linguistically Motivated Genic Interaction Extraction System," in Proceedings of the Fourth Learning Language in Logic workshop (LLL05), (Bonn, Germany), August 2005
  24. H. Harkema, R. Gaizauskas, M. Hepple, N. Davis, Y. Guo, A. Roberts, and I. Roberts, "A Large-Scale Resource for Storing and Recognizing Technical Terminology," in Proceedings of 4th International Conference on Language Resources and Evaluation, (Lisbon, Portugal), May 2004
  25. H. Harkema, R. Gaizauskas, M. Hepple, A. Roberts, I. Roberts, N. Davis, and Y. Guo, "A Large Scale Terminology Resource for Biomedical Text Processing," in HLT-NAACL 2004 Workshop: BioLINK 2004, Linking Biological Literature, Ontologies and Databases (L. Hirschman and J. Pustejovsky, eds.), (Boston, Massachusetts, USA), pp. 53-60, ACL, May 2004
  26. R. Gaizauskas, M. Hepple, N. Davis, Y. Guo, H. Harkema, A. Roberts, and I. Roberts, "AMBIT: Acquiring Medical and Biological Information from Text," in Proceedings of UK e-Science All Hands Meeting 2003 (S. Cox, ed.), (Nottingham, UK), pp. 370-373, September 2003
  27. L. Moreau, S. Miles, C. Goble, M. Greenwood, V. Dialani, M. Addis, N. Alpdemir, R. Cawley, D. D. Roure, J. Ferris, R. Gaizauskas, K. Glover, C. Greenhalgh, P. Li, X. Liu, P. Lord, M. Luck, D. Marvin, T. Oinn, N. Paton, S. Pettifer, M. V. Radenkovic, A. Roberts, A. Robinson, T. Rodden, M. Senger, N. Sharman, R. Stevens, B. Warboys, A. Wipat, and C. Wroe, "On the Use of Agents in a BioInformatics Grid," in Proceedings of the Third IEEE/ACM CCGRID 2003 Workshop on Agent Based Cluster and Grid Computing (S. Lee, S. Sekguchi, S. Matsuoka, and M. Sato, eds.),
  28. (Tokyo, Japan), pp. 653-661, May 2003
  29. S. Cox, L. Chen, S. Campobasso, M. Duta, M. Eres, M. Giles, C. Goble, Z. Jiao, A. Keane, G. Pound, A. Roberts, N. Shadbolt, F. Tao, J. Wason, and F. Xu, "Grid Enabled Optimisation and Design Search (GEODISE)," in UK e-Science All Hands Meeting 2002, (Sheffield, UK), September 2002
  30. L. Chen, S. Cox, C. Goble, A. Keane, A. Roberts, N. Shadbolt, P. Smart, and F. Tao, "Engineering Knowledge for Engineering Grid Applications," in Proceedings of Euroweb 2002 Conference, The Web and the GRID: from e-science to e-business (B. Hopgood, B. Matthews, and M. Wilson, eds.), (Oxford, UK), pp. 12-25, BCS, December 2002
  31. L. Moreau, S. Miles, C. Goble, M. Greenwood, V. Dialani, M. Addis, N. Alpdemir, R. Cawley, D. D. Roure, J. Ferris, R. Gaizauskas, K. Glover, C. Greenhalgh, P. Li, X. Liu, P. Lord, M. Luck, D. Marvin, T. Oinn, N. Paton, S. Pettifer, M. V. Radenkovic, A. Roberts, A. Robinson, T. Rodden, M. Senger, N. Sharman, R. Stevens, B. Warboys, P. Watson, and C. Wroe, "On the Use of Agents in a BioInformatics Grid," in Network Tools and Applications in Biology (NET- TAB 2002) Agents in Bioinformatics, (Bologna, Italy), July 2002
  32. A. Rector, J. Rogers, A. Roberts, and C. Wroe, "Ontologies, Terminologies, and the Semantic Web for Clinical and Bio Scientists," 2002. Tutorial T23 at the 2002 American Medical Informatics Association Annual Symposium (AMIA 2002), San Antoniio, Texas
  33. A. Rector, J. Rogers, A. Roberts, and C. Wroe, "Scale and Context: Issues in Ontologies to link Health- and Bio-Informatics," in Proceedings of the 2002 American Medical Informatics Association Annual Symposium (AMIA 2002) (I. S. Kohane, ed.), (San Antonio, Texas), pp. 642-646, A
  34. merican Medical Informatics Association, 2002
  35. C. Wroe, R. Stevens, C. Goble, A. Roberts, and M. Greenwood, "Using DAML+Oil ontologies for service discovery in myGrid ," in UK eScience All Hands Meeting 2002, (Sheffield, UK), September 2002
  36. C. Wroe, A. Roberts, and A. Rector, "Drug information sources: Linking a clinical drug ontology to product information databases," in Proceedings of Healthcare Computing 2001 (HC2001), (Harrogate, UK), BCS Health Informatics Committee, March 2001
  37. A. Rector, C. Wroe, J. Rogers, and A. Roberts, "Untangling Taxonomies and Relationships: Personal and Practical Problems in Loosely Coupled Development of Large Ontologies," in Proceedings of the First International Conference on Knowledge Capture (K-CAP 2001), (Victoria, British Columbia), pp. 139-146, ACM Press, October 2001
  38. J. Rogers, A. Roberts, D. Solomon, E. van der Haring, C. Wroe, P. Zanstra, and A. Rector, "GALEN Ten Years On: Tasks and Supporting Tools," in MedInfo 2001: Proceedings of the 10th World Congress on Health and Medical Informatics (R. Rogers, R. Haux, and V. Patel, eds.), (Amsterdam), pp. 256-260, International Medical Informatics Association, IOS Press, 2001
  39. M. B. do Amaral, A. Roberts, and A. L. Rector, "NLP Techniques associated with the OpenGalen Ontology for semi-automatic textual extraction of medical knowledge: abstracting and mapping equivalent Linguistic and Logical constructs," in Proceedings of the 2000 American Medical Informatics Association Annual Symposium (AMIA 2000) (J. M. Overhage, ed.), (Los Angeles), pp. 76-80, American Medical Informatics Association,
  40. Hanley and Belfus Inc., 2000
  41. W. D. Solomon, A. Roberts, J. E. Rogers, C. J. Wroe, and A. L. Rector, "Having our cake and eating it too: How the GALEN Intermediate Representation reconciles internal complexity with users requirements for appropriateness and simplicity," in Proceedings of the 2000 American Medical Informatics Association Annual Symposium (AMIA 2000) (J. M. Overhage, ed.), (Los Angeles), pp. 819-823, American Medical Informatics Association, Hanley and Belfus Inc., 2000

Reports

  1. A. Roberts, "Extracting Lexical Relations from Biomedical Text: Learning Parts and Wholes," Tech. Rep. CS-04-09, Department of Computer Science, University of Sheffield, October 2003