Prof Sophia Ananiadou

Chair in Computer Science

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Publications

  1. 2019
  2. E-pub ahead of print

    Mapping anatomical related entities to human body parts based on wikipedia in discharge summaries

    Wang, Y., Fan, X., Chen, L., Chang, E. I., Ananiadou, S., Tsujii, J. & Xu, Y., 17 Aug 2019, In : BMC Bioinformatics. 20, 1

    Research output: Contribution to journalArticle

  3. Published

    Adverse Drug Events and Medication Relation Extraction in EHRs with Ensemble Deep Learning Methods

    Christopoulou, F., Tran, T., Sahu, S., Miwa, M. & Ananiadou, S., 7 Aug 2019, In : Journal of the American Medical Informatics Association.

    Research output: Contribution to journalArticle

  4. Published

    Improving classification of Adverse Drug Reactions through Using Sentiment Analysis and Transfer Learning

    Alhuzali, H. & Ananiadou, S., 1 Jul 2019, Improving classification of Adverse Drug Reactions through Using Sentiment Analysis and Transfer Learning. p. 339 347 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  5. Published

    A Text Mining Pipeline Using Active and Deep Learning for Curating Information in Computational Neuroscience

    Shardlow, M., Ju, M., Li, M., O'Reilly, C., Iavarone, E., McNaught, J. & Ananiadou, S., Jul 2019, In : Neuroinformatics. 17, 3, p. 391-406 16 p.

    Research output: Contribution to journalArticle

  6. Published

    Inter-sentence Relation Extraction with Document-level Graph Convolutional Neural Network

    Sahu, S., Christopoulou, E., Miwa, M. & Ananiadou, S., Jul 2019, Inter-sentence Relation Extraction with Document-level Graph Convolutional Neural Network. p. 4309-4316 7 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  7. Published

    An Ensemble of Neural Models for Nested Adverse Drug Events and Medication Extraction with Subwords

    Ju, M., Nguyen, N., Miwa, M. & Ananiadou, S., 14 Jun 2019, In : Journal of the American Medical Informatics Association.

    Research output: Contribution to journalArticle

  8. Published

    Modelling Instance-Level Annotator Reliability for Natural Language Labelling Tasks

    Li, M., Fahlström Myrman, A., Mu, T. & Ananiadou, S., Jun 2019, Modelling Instance-Level Annotator Reliability for Natural Language Labelling Tasks. p. 2873-2883 10 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  9. Published

    Annotating and Detecting Phenotypic Information for Chronic Obstructive Pulmonary Disease

    Ju, M., Short, A., Thompson, P., Diar Bakerly, N., Gkoutos, G., Tsaprouni, L. & Ananiadou, S., 26 Apr 2019, In : Journal of the American Medical Informatics Association.

    Research output: Contribution to journalArticle

  10. Published

    Hypothesis, analysis and synthesis, it's all Greek to me

    Iliopoulos, I., Ananiadou, S., Danchin, A., Ioannidis, J. P., Katsikis, P. D., Ouzounis, C. A. & Promponas, V. J., 2019, In : eLife. 8

    Research output: Contribution to journalArticle

  11. Published
  12. Published

    Machine learning algorithms for systematic review: Reducing workload in a preclinical review of animal studies and reducing human screening error

    Bannach-Brown, A., Przybyła, P., Thomas, J., Rice, A. S. C., Ananiadou, S., Liao, J. & Macleod, M. R., 2019, In : Systematic Reviews. 8, 1, 23.

    Research output: Contribution to journalReview article

  13. Published

    Quantifying Risk Factors in Medical Reports with a Context-Aware Linear Model

    Przybyla, P., Brockmeier, A. & Ananiadou, S., 2019, In : Journal of the American Medical Informatics Association.

    Research output: Contribution to journalArticle

  14. 2018
  15. Published

    Improve Chinese Clinical Named Entity Recognition Performance by Using the Graphical and Phonetic Feature

    Tsujii, J., Ananiadou, S. & Wang, Y., 3 Dec 2018, Proceedings of BIBM 2018 (IEEE). p. 1582-1586 5 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  16. Published

    Prioritising references for systematic reviews with RobotAnalyst: a user study

    Przybyła, P., Brockmeier, A., Kontonatsios, G., Le Pogam, M-A., McNaught, J., von Elm, E., Nolan, K. & Ananiadou, S., 25 Sep 2018, In : Research Synthesis Methods. 9, 3, p. 470-488

    Research output: Contribution to journalArticle

  17. Published

    Investigating Domain-Specific Information for Neural Coreference Resolution on Biomedical Texts

    Trieu, H-L., Nguyen, N., Miwa, M. & Ananiadou, S., 19 Jul 2018, Proceedings of the BioNLP 2018 workshop . p. 183-188 6 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  18. Published

    Biosimilar vs originator insulins: Systematic review and meta-analysis

    Yamada, T., Kamata, R., Ishinohachi, K., Shojima, N., Ananiadou, S., Nom, H., Yamauchi, T. & Kadowaki, T., 1 Jul 2018, In : Diabetes, Obesity and Metabolism. 20, 7, p. 1787-1792

    Research output: Contribution to journalArticle

  19. Published

    Identification of research hypotheses and new knowledge from scientific literature

    Shardlow, M., Batista-Navarro, R. T., Thompson, P., McNaught, J. & Ananiadou, S., 25 Jun 2018, In : BMC Medical Informatics and Decision Making. 18, 13 p., 46.

    Research output: Contribution to journalArticle

  20. Published

    Paths for uncertainty: Exploring the intricacies of uncertainty identification for news

    Zerva, C. & Ananiadou, S., 5 Jun 2018, Proceedings of the NAACL Workshop on Computational Semantics Beyond Events and Roles (SemBEaR). p. 6-20 15 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  21. Published

    Extracting Gene-Disease Relations from Text to Support Biomarker Discovery

    Thompson, P. & Ananiadou, S., 2 Jun 2018, Digital Health 2017: Global Public Health, Personalised Medicine, and Emergency Medicine in the Age of Big Data. ACM Digital Library

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  22. Published

    A Neural Layered Model for Nested Named Entity Recognition

    Ju, M., Miwa, M. & Ananiadou, S., 1 Jun 2018, Proceedings of NAACL 2018. p. 1446-1459 11 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  23. Published

    A New Corpus to Support Text Mining for the Curation of Metabolites in the ChEBI Database

    Shardlow, M., Nguyen, N., Owen, G., Turner, S., Leach, A., O'Donovan, C., McNaught, J. & Ananiadou, S., May 2018, p. 280-285. 6 p.

    Research output: Contribution to conferencePaper

  24. Published

    LitPathExplorer: A Confidence-based Visual Text Analytics Tool for Exploring Literature-Enriched Pathway Models

    Soto, A., Zerva, C., Batista-Navarro, R. T. & Ananiadou, S., 15 Apr 2018, In : Bioinformatics. 34, 8, p. 1389-1397

    Research output: Contribution to journalArticle

  25. Published

    On Revolutions

    Leroi, A. M., Lambert, B. C., Mauch, M., Papadopoulou, M., Ananiadou, S., Lindberg, S. I. I. & Lindenfors, P., 15 Mar 2018, In : SSRN Working Paper Series. 63.

    Research output: Contribution to journalArticle

  26. Published

    Self-Tuned Descriptive Document Clustering using a Predictive Network

    Brockmeier, A., Mu, T., Ananiadou, S. & Goulermas, J. Y., 23 Feb 2018, In : IEEE Transactions on Knowledge and Data Engineering.

    Research output: Contribution to journalArticle

  27. Published

    Annotation and Detection of Drug Effects in Text for Pharmacovigilance

    Thompson, P., Daikou, S., Ueno, K., Batista-Navarro, R. T., Tsujii, J. & Ananiadou, S., 2018, In : Journal of Cheminformatics. 10

    Research output: Contribution to journalArticle

  28. Published

    HYPHEN: A flexible, hybrid method to map phenotype concept mentions to terminological resources

    Thompson, P. & Ananiadou, S., 2018, In : Terminology. 24, 1, p. 91-121

    Research output: Contribution to journalArticle

  29. Published

    Thalia: Semantic search engine for biomedical abstracts

    Soto, A., Przybyla, P. & Ananiadou, S., 2018, In : Bioinformatics.

    Research output: Contribution to journalArticle

  30. 2017
  31. Published

    Identifying Personalised Treatments and Clinical Trials for Precision Medicine using Semantic Search with Thalia

    Przybyła, P., Soto, A. & Ananiadou, S., Nov 2017, Proceedings of the Twenty-Fifth Text REtrieval Conference (TREC 2017).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  32. Published

    Risk of bias reporting in the recent animal focal cerebral ischaemia literature

    Bahor, Z., Liao, J., Macleod, M., Bannach-brown, A., Mccann, S., Wever, K., Thomas, J., Ottavi, T., Howells, D., Rice, A., Ananiadou, S. & Sena, E., 15 Oct 2017, In : Clinical Science. 131, 20, p. 2525-2532

    Research output: Contribution to journalArticle

  33. Published

    Proactive Learning for Named Entity Recognition

    Li, M., Nguyen, N. & Ananiadou, S., Aug 2017, Proceedings of BioNLP 2017. p. 117-125 9 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  34. Published

    Using uncertainty to link and rank evidence from biomedical literature for model curation

    Zerva, C., Batista-Navarro, R. T., Day, P. & Ananiadou, S., 24 Jul 2017, In : Bioinformatics.

    Research output: Contribution to journalArticle

  35. Published

    Quantifying the Informativeness of Similarity Measurements

    Brockmeier, A., Mu, T., Ananiadou, S. & Goulermas, J. Y., 7 Jul 2017, In : Journal of Machine Learning Research.

    Research output: Contribution to journalArticle

  36. Published

    Data Visualization with Structural Control of Global Cohort and Local Data Neighborhoods

    Mu, T., Goulermas, J. Y. & Ananiadou, S., 15 Jun 2017, In : IEEE Transactions on Pattern Analysis and Machine Intelligence. PP, 99

    Research output: Contribution to journalArticle

  37. Published

    Enriching News Events with Meta-knowledge Information

    Thompson, P., Nawaz, R., McNaught, J. & Ananiadou, S., Jun 2017, In : Language Resources and Evaluation. 51, 2, p. 409-438 30 p.

    Research output: Contribution to journalArticle

  38. Published

    Supporting Biological Pathway Curation Through Text Mining

    Ananiadou, S. & Thompson, P., 23 Apr 2017, In : Communications in Computer and Information Science. p. 59-73 15 p.

    Research output: Contribution to journalArticle

  39. Published

    Constructing a biodiversity terminological inventory

    Nguyen, N., Soto, A., Kontonatsios, G., Batista-Navarro, R. T. & Ananiadou, S., 17 Apr 2017, In : PLoS ONE. p. 1-23 23 p.

    Research output: Contribution to journalArticle

  40. Published

    A Text Mining-Based Framework for Constructing an RDF-Compliant Biodiversity Knowledge Repository

    Batista-navarro, R., Zerva, C., Nguyen, N. T. H. & Ananiadou, S., 8 Mar 2017, Communications in Computer and Information Science . p. 30-42 13 p. (Information Management and Big Data).

    Research output: Chapter in Book/Report/Conference proceedingChapter

  41. Accepted/In press

    5Ws: What Went Wrong With Word embeddings

    Espinosa, K. J., Batista-Navarro, R. T. & Ananiadou, S., 2017, (Accepted/In press).

    Research output: Contribution to conferencePaper

  42. Published

    A semi-supervised approach using label propagation to support citation screening

    Kontonatsios, G., Brockmeier, A., Przybyla, P., McNaught, J., Mu, T., Goulermas, J. Y. & Ananiadou, S., 2017, In : Journal of Biomedical Informatics.

    Research output: Contribution to journalArticle

  43. Published

    biochem4j: integrated and extensible biochemical knowledge through graph databases

    Swainston, N., Batista-Navarro, R. T., Carbonell, P., Dobson, P., Dunstan, M., Jervis, A., Vinaixa, M., Williams, A., Ananiadou, S., Faulon, J-L., Pedrosa Mendes, P., Kell, D., Scrutton, N. & Breitling, R., 2017, In : PLoS ONE. 12, 7, e0179130.

    Research output: Contribution to journalArticle

  44. Published

    Distributed document and phrase co-embeddings for descriptive clustering

    Tsujii, J., Sato, M., Brockmeier, A., Kontonatsios, G., Mu, T. & Ananiadou, S., 2017, Proceedings of EACL 2017. p. 991-1001 11 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  45. Accepted/In press

    Distributed Document and Phrase Co-embeddings for Descriptive Clustering

    Sato, M., Brockmeier, A., Kontonatsios, G., Mu, T., Goulermas, J., Tsujii, J. & Ananiadou, S., 2017, (Accepted/In press) p. 991-1001. 11 p.

    Research output: Contribution to conferencePaper

  46. Published

    Role of in silico tools and text mining in the safety assessment of selected plant coumarins

    Raitano, G., Benfenati, E., Ananiadou, S., Fu, X., Do, Q. T., Rat, P. & Sousselier, L., 2017, In : Toxicology Letters. 280, p. S96

    Research output: Contribution to journalArticle

  47. 2016
  48. Published

    Mapping Phenotypic Information in Heterogeneous Textual Sources to a Domain- Specific Terminological Resource

    Alnazzawi, N., Thompson, P. & Ananiadou, S., 19 Sep 2016, In : PLoS One.. 11, 9, e0162287.

    Research output: Contribution to journalArticle

  49. Published

    Overview of the interactive task in BioCreative V

    Wang, Q., Abdul, S. S., Almeida, L., Ananiadou, S., Balderas-Martínez, Y. I., Batista-Navarro, R., Campos, D., Chilton, L., Chou, H. J., Contreras, G., Cooper, L., Dai, H. J., Ferrell, B., Fluck, J., Gama-Castro, S., George, N., Gkoutos, G., Irin, A. K., Jensen, L. J., Jimenez, S. & 36 others, Jue, T. R., Keseler, I., Madan, S., Matos, S., McQuilton, P., Milacic, M., Mort, M., Natarajan, J., Pafilis, E., Pereira, E., Rao, S., Rinaldi, F., Rothfels, K., Salgado, D., Silva, R. M., Singh, O., Stefancsik, R., Su, C. H., Subramani, S., Tadepally, H. D., Tsaprouni, L., Vasilevsky, N., Wang, X., Chatr-Aryamontri, A., Laulederkind, S. J. F., Matis-Mitchell, S., McEntyre, J., Orchard, S., Pundir, S., Rodriguez-Esteban, R., Van Auken, K., Lu, Z., Schaeffer, M., Wu, C. H., Hirschman, L. & Arighi, C. N., 1 Sep 2016, In : Database. 2016, baw119.

    Research output: Contribution to journalArticle

  50. Published

    A text mining framework for accelerating the semantic curation of literature

    Batista-Navarro, R., Hammock, J., Ulate, W. & Ananiadou, S., 10 Aug 2016, Research and Advanced Technology for Digital Libraries : 20th International Conference on Theory and Practice of Digital Libraries, TPDL 2016 Hannover, Germany, September 5-9, 2016 proceedings. Springer Nature, p. 459-462 4 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 9819).

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  51. Published

    Text Mining Workflows for Indexing Archives with Automatically Extracted Semantic Metadata

    Batista-Navarro, R. T., Soto, A., Ulate, W. & Ananiadou, S., 10 Aug 2016, p. 471-473.

    Research output: Contribution to conferenceOther

  52. Published

    Analysis of the effect of sentiment analysis on extracting adverse drug reactions from tweets and forum posts

    Korkontzelos, I., Azadeh Nikfarjamb, Shardlow, M., Sarkerb, A., Ananiadou, S. & Graciela H. Gonzalez, Aug 2016, In : Journal of Biomedical Informatics. 62, p. 148–158

    Research output: Contribution to journalArticle

  53. Published

    Topic Detection Using Paragraph Vectors to Support Active Learning in Systematic Reviews

    Hashimoto, K., Kontonatsios, G., Miwa, M. & Ananiadou, S., Aug 2016, In : Journal of Biomedical Informatics. 62, p. 59–65

    Research output: Contribution to journalArticle

  54. Published

    Text Mining for Semantic Search in Europe PubMed Central Labs

    Black, W., Rowley, A., Miwa, M., McNaught, J. & Ananiadou, S., 12 Jul 2016, Working with Text: Tools, Techniques and Approaches for Text Mining. Tonkin, E. & Tourte, G. (eds.). Cambridge: Chandos, p. 111-131 (Chandos Information Professional Series).

    Research output: Chapter in Book/Report/Conference proceedingChapter

  55. Published

    The strategic impact of META-NET on the regional, national and international level

    Rehm, G., Uszkoreit, H., Garabik, R., Grobelnik, M., García-Mateo, C., van Genabith, J., Hajič, J., Hernáez, I., Judge, J., Koeva, S., Krek, S., Krstev, C., Ananiadou, S., Lindén, K., Magnini, B., Mariani, J., McNaught, J., Melero, M., Monachini, M., Moreno, A. & 24 others, Odijk, J., Ogrodniczuk, M., Pęzik, P., Bel, N., Piperidis, S., Przepiórkowski, A., Rögnvaldsson, E., Rosner, M., Pedersen, B. S., Skadiņa, I., De Smedt, K., Tadíc, M., Thompson, P., Tufiș, D., Bielevičiené, A., Váradi, T., Vasiļjevs, A., Vider, K., Zabarskaitė, J., Borin, L., Branco, A., Budin, G., Calzolari, N. & Daelemans, W., Jun 2016, In : Language Resources and Evaluation. 50, 2, p. 351-374 24 p.

    Research output: Contribution to journalArticle

  56. Published

    Argo: Enabling the development of bespoke workflows and services for disease annotation

    Batista-Navarro, R. T., Carter, J. & Ananiadou, S., 11 Apr 2016, In : Database: The Journal of Biological Databases and Curation.

    Research output: Contribution to journalArticle

  57. Published

    Customised OCR correction for historical medical text

    Thompson, P., McNaught, J. & Ananiadou, S., Mar 2016, 2015 Digital Heritage. Guidi, G., Scopigno, R., Torres, J. C. & Graf, H. (eds.). IEEE, Vol. 1. p. 35-41 7 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  58. Published

    Semantically enhanced search system for historical medical archives

    Thompson, P., Carter, J., McNaught, J. & Ananiadou, S., Mar 2016, 2015 Digital Heritage. Guidi, G., Scopigno, R., Torres, J. C. & Graf, H. (eds.). IEEE, Vol. 2. p. 387-390 4 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  59. Published

    Text mining the history of medicine

    Thompson, P., Batista-Navarro, R. T., Kontonatsios, G., Carter, J., Toon, E., McNaught, J., Timmermann, C., Worboys, M. & Ananiadou, S., 6 Jan 2016, In : P L o S One. 11, 1, 33 p., e0144717.

    Research output: Contribution to journalArticle

  60. Published

    BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID

    Kim, S., Islamaj Doğan, R., Chatr-Aryamontri, A., Chang, C. S., Oughtred, R., Rust, J., Batista-Navarro, R., Carter, J., Ananiadou, S., Matos, S., Santos, A., Campos, D., Oliveira, J. L., Singh, O., Jonnagaddala, J., Dai, H. J., Su, E. C. Y., Chang, Y. C., Su, Y. C., Chu, C. H. & 15 others, Chen, C. C., Hsu, W. L., Peng, Y., Arighi, C., Wu, C. H., Vijay-Shanker, K., Aydın, F., Hüsünbeyi, Z. M., Özgür, A., Shin, S. Y., Kwon, D., Dolinski, K., Tyers, M., Wilbur, W. J. & Comeau, D. C., 2016, In : Database : the journal of biological databases and curation. 2016

    Research output: Contribution to journalArticle

  61. Published

    Facilitating and promoting web annotation with Argo

    Shardlow, M., Przybyla, P., Batista-Navarro, R. T., Carter, J., McNaught, J. & Ananiadou, S., 2016, Proceedings of I Annotate 2016.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  62. Published

    Learning to recognise named entities in tweets by exploiting weakly labelled data

    Espinosa, K. J., Batista-Navarro, R. T. & Ananiadou, S., 2016.

    Research output: Contribution to conferencePoster

  63. Published

    NaCTeM at SemEval-2016 Task 1: Inferring sentence-level semantic similarity from an ensemble of complementary lexical and sentence-level features

    Przybyla, P., Nguyen, N., Shardlow, M., Kontonatsios, G. & Ananiadou, S., 2016, Proceedings of the 10th International Workshop on Semantic Evaluation .

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  64. Published

    Text Mining Resources for the Life Sciences

    Przybyla, P., Shardlow, M., Aubin, S., Bossy, R., Eckart de Castilho, R., Piperidis, S., McNaught, J. & Ananiadou, S., 2016, In : Database. 2016, 30 p.

    Research output: Contribution to journalArticle

  65. 2015
  66. Published

    Supporting Systematic Reviews Using LDA-based Document Representations

    Mo, Y., Kontonatsios, G. & Ananiadou, S., Nov 2015, In : Systematic Reviews. 24, 6

    Research output: Contribution to journalArticle

  67. Published

    Boosting Drug Named Entity Recognition Using an Aggregate Classifier

    Korkontzelos, I., Piliouras, D., Dowsey, AW. & Ananiadou, S., Oct 2015, In : Artificial Intelligence in Medicine. 65, 2, p. 145–153 9 p.

    Research output: Contribution to journalArticle

  68. Published

    Event Extraction in pieces: tackling the partial event identification problem on unseen corpora

    Ananiadou, S., Kevin, C. (ed.), Dina, D-F. (ed.), Ananiadou, S. (ed.) & Jun-ichi, T. (ed.), 31 Jul 2015, Biomedical Natural Language Processing. Kevin, C., Dina, D-F., Sophia, A. & Jun-ichi, T. (eds.). Association for Computational Linguistics, p. 31-41 11 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  69. Published

    Adaptable, High Recall, Event Extraction System with Minimal Configuration

    Miwa, M. & Ananiadou, S., 13 Jul 2015, In : B M C Bioinformatics. 16, 10:S7, PMID: 26201408.

    Research output: Contribution to journalArticle

  70. Published

    Overview of the Cancer Genetics and Pathway Curation tasks of BioNLP Shared Task 2013

    Pyysalo, S., Ohta, T., Rak, R., Rowley, A., Chun, H. W., Jung, S. J., Choi, S. P., Tsujii, J. & Ananiadou, S., 23 Jun 2015, In : BMC Bioinformatics. 16, 10, S2.

    Research output: Contribution to journalArticle

  71. Published

    Using text mining techniques to extract phenotypic information from the PhenoCHF corpus

    Alnazzawi, N., Thompson, P., Batista-Navarro, R. T. & Ananiadou, S., 15 Jun 2015, In : B M C Medical Informatics and Decision Making. 15, Suppl 2

    Research output: Contribution to journalArticle

  72. Published

    A Cross-lingual Similarity Measure for Detecting Biomedical Term Translations

    Bollegala, D., Kontonatsios, G. & Ananiadou, S., 1 Jun 2015, In : P L o S One. 10, 6, e0126196.

    Research output: Contribution to journalArticle

  73. Published

    Event-based text mining for biology and functional genomics

    Ananiadou, S., Thompson, P., Nawaz, R., McNaught, J. & Kell, D., May 2015, In : Briefings in functional genomics. 14, 3, p. 213-30 17 p.

    Research output: Contribution to journalArticle

  74. Published

    Optimising chemical named entity recognition with pre-processing analytics, knowledge-rich features and heuristics

    Batista-Navarro, R., Rak, R. & Ananiadou, S., 19 Jan 2015, In : Journal of Cheminformatics. 7, (Suppl 1): S6, 13 p.

    Research output: Contribution to journalArticle

  75. Published

    Using text mining for study identification in systematic reviews: a systematic review of current approaches

    O'Mara-Eves, A., Thomas, J., McNaught, J., Miwa, M. & Ananiadou, S., 14 Jan 2015, In : Systematic Reviews. 4, 5

    Research output: Contribution to journalArticle

  76. Published

    Adapting ChER for the recognition of chemical mentions in patents

    Batista-Navarro, R. T. & Ananiadou, S., 2015, Proceedings of the Fifth BioCreative Challenge Evaluation Workshop. Seville, Spain, p. 149-153

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  77. Published

    Augmenting the Medical Subject Headings vocabulary with semantically rich variants to improve disease mention normalisation

    Batista-Navarro, R. T. & Ananiadou, S., 2015, Proceedings of the Fifth BioCreative Challenge Evaluation Workshop. Seville, Spain, p. 311-316

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  78. Published

    Bilingual term alignment from comparable corpora in English discharge summary and Chinese discharge summary

    Xu, Y., Chen, L., Wei, J., Ananiadou, S., Fan, Y., Qian, Y., Chang, E. I-C. & Tsujii, J., 2015, In : B M C Bioinformatics. 16, 149.

    Research output: Contribution to journalArticle

  79. Published

    Bridging text-mined biomolecular events to pathway models using approximate subgraph matching techniques

    Batista-Navarro, R. T., Nawaz, R., Zerva, C. & Ananiadou, S., 2015, Proceedings of the 16th International Conference on Systems Biology, Singapore.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  80. Published

    Development of bespoke machine learning and biocuration workflows in a BioC-supporting text mining workbench.

    Batista-Navarro, R. T., Carter, J. & Ananiadou, S., 2015, Proceedings of the Fifth BioCreative Challenge Evaluation Workshop. Seville, Spain, p. 51-56

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  81. Published

    Extending a Tool Resource Framework with U-Compare

    Rosner, M., Attard, A., Thompson, P., Gatt, A. & Ananiadou, S., 2015, Human Language Technology Challenges for Computer Science and Linguistics. Springer Nature, Vol. 8387. p. 315-326 12 p. (Lecture Notes in Computer Science).

    Research output: Chapter in Book/Report/Conference proceedingChapter

  82. Published

    Mining the biomedical literature

    Mihaila, C., Batista-Navarro, R. T., Alnazzawi, N., Kontonatsios, G., Korkontzelos, I., Rak, R., Thompson, P. & Ananiadou, S., 2015, Healthcare Data Analytics. CRC Press, p. 251-308

    Research output: Chapter in Book/Report/Conference proceedingChapter

  83. Published

    Semi-automatic curation of chronic obstructive pulmonary disease phenotypes using Argo.

    Batista-Navarro, R. T., Carter, J. & Ananiadou, S., 2015, Proceedings of the Fifth BioCreative Challenge Evaluation Workshop. Seville, Spain, p. 406-408

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  84. Published

    Supporting the annotation of chronic obstructive pulmonary disease (COPD) phenotypes with text mining workflows

    Fu, X., Batista-Navarro, R. T., Rak, R. & Ananiadou, S., 2015, In : Journal of Biomedical Semantics. 6, 8

    Research output: Contribution to journalArticle

  85. Published

    Unlocking knowledge in biodiversity legacy literature through automatic semantic metadata extraction.

    Batista-Navarro, R. T., Ulate, W., Hammock, J., Kontonatsios, G., Rose-Sandler, T. & Ananiadou, S., 2015, Proceedings of the TDWG 2015 Annual Conference.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  86. 2014
  87. Published

    Descriptive Document Clustering via Discriminant Learning in a Co-Embedded Space of Multilevel Similarities

    Mu, T., Goulermas, J. Y., Korkontzelos, I. & Ananiadou, S., 3 Dec 2014, In : Journal of the Association for Information Science and Technology. 67, 1, p. 106-133

    Research output: Contribution to journalArticle

  88. Published

    Semi-supervised learning of causal relations in biomedical scientific discourse

    Mihaila, C., Mihăilă, C. & Ananiadou, S., Dec 2014, In : BioMedical Engineering OnLine. 13, Suppl 2

    Research output: Contribution to journalArticle

  89. Published

    Europe PMC: a full-text literature database for the life sciences and platform for innovation

    Gou, Y., Graff, F., Rossiter, P., Talo, F., Vartak, V., Coleman, L-A., Hawkins, C., Kinsey, A., Mansoor, S., Morris, V., Rowbotham, R., Chapman, D., Kilian, O., MacIntyre, R., Patel, Y., Ananiadou, S., Black, W., McNaught, J., Rak, R., Rowley, A. & 7 others, Kafkas, S., Katuri, J., Kim, J-H., Marinos, N., McEntyre, J., Morrison, A. & Pi, X., 6 Nov 2014, In : Nucleic acids research. p. 1-7 7 p.

    Research output: Contribution to journalArticle

  90. Published

    A hybrid approach to compiling bilingual dictionaries of medical terms from parallel corpora

    Kontonatsios, G., Mihaila, C., Korkontzelos, I., Thompson, P. & Ananiadou, S., Oct 2014, Statistical Language and Speech Processing. Springer Nature, p. 57-69 13 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  91. Published

    Combining String and Context Similarity for Bilingual Term Alignment from Comparable Corpora

    Kontonatsios, G., Korkontzelos, I., Tsujii, J. & Ananiadou, S., Oct 2014, Proceedings of the 2014 Conference on Empirical Methods in Natural Language Processing (EMNLP). Association for Computational Linguistics, p. 1701-1712 12 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  92. Published

    Text Mining-assisted Biocuration Workflows in Argo

    Rak, R., Batista-Navarro, R. T., Rowley, A., Carter, J. & Ananiadou, S., 18 Jul 2014, In : Database. p. 1–14

    Research output: Contribution to journalArticle

  93. Published

    Improving the Extraction of Clinical Concepts from Clinical Records

    Fu, X. & Ananiadou, S., May 2014, Proceedings of the 4th Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing. Reykjavik, Iceland: European Language Resources Association

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  94. Published

    Interoperability and Customisation of Annotation Schemata in Argo

    Rak, R., Rowley, A., Carter, J., Batista-Navarro, R. T. & Ananiadou, S., May 2014, Proceedings of the Ninth International Conference on Language Resources and Evaluation (LREC'14). European Language Resources Association, p. 3837-3842 6 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  95. Published

    Locating Requests among Open Source Software Communication Messages

    Korkontzelos, I. & Ananiadou, S., May 2014, Proceedings of the Ninth International Conference on Language Resources and Evaluation (LREC'14). European Language Resources Association, p. 1347-1354 8 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  96. Published

    The Meta-knowledge of Causality in Biomedical Scientific Discourse

    Mihaila, C. & Ananiadou, S., May 2014, Proceedings of the Ninth International Conference on Language Resources and Evaluation (LREC'14). European Language Resources Association, p. 1984-1991 8 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  97. Published

    The Strategic Impact of META-NET on the Regional, National and International Level

    Rehm, G., Uszkoreit, H., Ananiadou, S., Bel, N., Bielevičiené, A., Borin, L., Branco, A., Budin, G., Calzolari, N., Daelemans, W., Garabik, R., Grobelnik, M., García-Mateo, C., van Genabith, J., Hajič, J., Hernáez, I., Judge, J., Koeva, S., Krek, S., Krstev, C. & 24 others, Lindén, K., Magnini, B., Mariani, J., McNaught, J., Melero, M., Monachini, M., Moreno, A., Odijk, J., Ogrodniczuk, M., Pęzik, P., Piperidis, S., Przepiórkowski, A., Rögnvaldsson, E., Rosner, M., Pedersen, B. S., Skadiņa, I., De Smedt, K., Tadíc, M., Thompson, P., Tufiș, D., Váradi, T., Vasiļjevs, A., Vider, K. & Zabarskaitė, J., May 2014, Proceedings of the Ninth International Conference on Language Resources and Evaluation (LREC'14). Calzolari, N., Choukri, K., Declerck, T., Loftsson, H., Maegaard, B., Mariani, J. & Moreno, A. (eds.). European Language Resources Association, p. 1517-1524 8 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  98. Published

    Building a semantically annotated corpus for congestive heart and renal failure from clinical records and the literature

    Alnazzawi, N., Thompson, P. & Ananiadou, S., Apr 2014, Proceedings of the 5th International Workshop on Health Text Mining and Information Analysis (Louhi). Association for Computational Linguistics, p. 69-74 6 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  99. Published

    Using a Random Forest Classifier to Compile Bilingual Dictionaries of Technical Terms from Comparable Corpora

    Kontonatsios, G., Korkontzelos, I., Tsujii, J. & Ananiadou, S., Apr 2014, Proceedings of the 14th Conference of the European Chapter of the Association for Computational Linguistics, volume 2: Short Papers. Association for Computational Linguistics, p. 111-116 6 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  100. Published

    A hybrid approach to compiling bilingual dictionaries of medical terms from parallel corpora

    Kontonatsios, G., Mih{\u{a}}il{\u{a}}, C., Korkontzelos, I., Thompson, P. & Ananiadou, S., 2014, Statistical Language and Speech Processing, Second International Conference, SLSP 2014. Springer Nature, Vol. 8791. p. 57-69 13 p. (LNCS/LNAI).

    Research output: Chapter in Book/Report/Conference proceedingChapter

  101. Published

    A Strategy for Annotating Clinical Records with Phenotypic Information relating to the Chronic Obstructive Pulmonary Disease

    Fu, X., Batista-Navarro, R. T., Rak, R. & Ananiadou, S., 2014, Proceedings of the Phenotype day at ISMB 2014. p. 1-8 8 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  102. Published

    Anatomical Entity Mention Recognition at Literature Scale

    Pyysalo, S. & Ananiadou, S., 2014, In : Bioinformatics. 30, 6, p. 868-875 8 p.

    Research output: Contribution to journalArticle

  103. Published

    Anatomical entity recognition with a hierarchical framework augmented by external resource

    Xu, Y., Hua, J., Ni, Z., Chen, Q., Fan, Y., Ananiadou, S., Chang, E. I-C. & Tsujii, J., 2014, In : P L o S One. 9, 10, e108396.

    Research output: Contribution to journalArticle

  104. Published

    Comparable Study of Event Extraction in Newswire and Biomedical Domains

    Miwa, M., Thompson, P., Korkontzelos, I. & Ananiadou, S., 2014, Proceedings of Coling 2014. p. 2270-2279 10 p.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

  105. Published

    Discovering robust embeddings in (Dis)similarity space for high-dimensional linguistic features

    Mu, T., Miwa, M., Tsujii, J. & Ananiadou, S., 2014, In : Computational Intelligence. 30, 2, p. 285-315 30 p.

    Research output: Contribution to journalArticle

  106. Published

    Enriching the legacy literature with OCR corrections and text-mined semantic metadata.

    Batista-Navarro, R. T., Islam, A., Ulate, W., Hammock, J., Soto, A., Ananiadou, S. & Milios, E., 2014, Proceedings of the TDWG 2014 Annual Conference.

    Research output: Chapter in Book/Report/Conference proceedingConference contribution

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