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Prof Sophia Ananiadou - publications

List of publications

2017

  • Thompson, P., & Ananiadou, S. (2017). Extracting Gene-Disease Relations from Text to Support Biomarker Discovery. In Digital Health 2017: Global Public Health, Personalised Medicine, and Emergency Medicine in the Age of Big Data. ACM Digital Library. . Publication link: 190d5404-b136-4fbf-b6d5-179c0f858e1c
  • Sato, M., Brockmeier, A., Kontonatsios, G., Mu, T., Goulermas, J., Tsujii, J., & Ananiadou, S. (2017). Distributed Document and Phrase Co-embeddings for Descriptive Clustering. 991-1001. Paper presented at European Chapter of the Association for Computational Linguistics, Valencia, Spain.. Publication link: d3cf79e1-2978-4789-b3b6-cd173d040458

2016

  • Rehm, G., Uszkoreit, H., Garabik, R., Grobelnik, M., García-Mateo, C., van Genabith, J., ... Daelemans, W. (2016). The strategic impact of META-NET on the regional, national and international level. Language Resources and Evaluation, 50(2), 351-374. DOI: 10.1007/s10579-015-9333-4. Publication link: 4bb2603f-86d5-4452-a550-f8e8c495eb6c
  • Thompson, P., Carter, J., McNaught, J., & Ananiadou, S. (2016). Semantically enhanced search system for historical medical archives. In G. Guidi, R. Scopigno, J. C. Torres, & H. Graf (Eds.), 2015 Digital Heritage. (Vol. 2, pp. 387-390). IEEE. DOI: 10.1109/DigitalHeritage.2015.7419530. Publication link: 29baddfd-0d82-42c1-92d6-a0acd4e91f9f
  • Wang, Q., Abdul, S. S., Almeida, L., Ananiadou, S., Balderas-Martínez, Y. I., Batista-Navarro, R., ... Arighi, C. N. (2016). Overview of the interactive task in BioCreative V. Database, 2016, [baw119]. DOI: 10.1093/database/baw119. Publication link: 199c0e58-4cf5-40fc-9827-ffea64f29029
  • Thompson, P., McNaught, J., & Ananiadou, S. (2016). Customised OCR correction for historical medical text. In G. Guidi, R. Scopigno, J. C. Torres, & H. Graf (Eds.), 2015 Digital Heritage. (Vol. 1, pp. 35-41). IEEE. DOI: 10.1109/DigitalHeritage.2015.7413829. Publication link: 1a80e7c4-9239-4bc9-8fae-c2eb0382f781
  • Przybyla, P., Shardlow, M., Aubin, S., Bossy, R., Eckart de Castilho, R., Piperidis, S., ... Ananiadou, S. (2016). Text Mining Resources for the Life Sciences. Database, 2016. DOI: 10.1093/database/baw145. Publication link: 8edb37c2-cec7-411d-902b-6bf8178e12fb
  • Alnazzawi, N., Thompson, P., & Ananiadou, S. (2016). Mapping Phenotypic Information in Heterogeneous Textual Sources to a Domain- Specific Terminological Resource. PLoS One., 11(9), [e0162287]. DOI: 10.1371/journal.pone.0162287. Publication link: 8ddb1a3d-bf6f-4aa0-aa34-82bb933777a4
  • Thompson, P., Nawaz, R., McNaught, J., & Ananiadou, S. (2016). Enriching News Events with Meta-knowledge Information. Language Resources and Evaluation, 1–30. DOI: 10.1007/s10579-016-9344-9. Publication link: 8750fd86-3ceb-4823-90c4-1c157980d936
  • Batista-Navarro, R. T., Soto, A., Ulate, W., & Ananiadou, S. (2016). Text Mining Workflows for Indexing Archives with Automatically Extracted Semantic Metadata. 471-473. Research and Advanced Technology for Digital Libraries - 20th International Conference on Theory and Practice of Digital Libraries, TPDL 2016, , .DOI: 10.1007/978-3-319-43997-6. Publication link: 89a366f5-4eb5-4434-9fad-d4e08e1f3988
  • Korkontzelos, I., Azadeh Nikfarjamb, Shardlow, M., Sarkerb, A., Ananiadou, S., & Graciela H. Gonzalez (2016). Analysis of the effect of sentiment analysis on extracting adverse drug reactions from tweets and forum posts. Journal of Biomedical Informatics, 62, 148–158. DOI: 10.1016/j.jbi.2016.06.007. Publication link: 70a3f77e-6614-46d5-9467-d4572d518319
  • Przybyla, P., Nguyen, N., Shardlow, M., Kontonatsios, G., & Ananiadou, S. (2016). NaCTeM at SemEval-2016 Task 1: Inferring sentence-level semantic similarity from an ensemble of complementary lexical and sentence-level features. In Proceedings of the 10th International Workshop on Semantic Evaluation .. Publication link: 681463b9-1bd9-4179-bc75-fcd7044b9c2b
  • Hashimoto, K., Kontonatsios, G., Miwa, M., & Ananiadou, S. (2016). Topic Detection Using Paragraph Vectors to Support Active Learning in Systematic Reviews. Journal of Biomedical Informatics, 62, 59–65. DOI: 10.1016/j.jbi.2016.06.001. Publication link: dcd353e0-c6e8-42e5-ae42-ae7677e183ab
  • Thompson, P., Batista-Navarro, R. T., Kontonatsios, G., Carter, J., Toon, E., McNaught, J., ... Ananiadou, S. (2016). Text mining the history of medicine. P L o S One, 11(1), [e0144717]. DOI: 10.1371/journal.pone.0144717. Publication link: a4ba4803-be78-4b32-8ec1-5a98acb2ea41
  • Shardlow, M., Przybyla, P., Batista-Navarro, R. T., Carter, J., McNaught, J., & Ananiadou, S. (2016). Facilitating and promoting web annotation with Argo. In Proceedings of I Annotate 2016.. Publication link: a16570a0-3ae7-479b-a0ea-1b148d93ae64
  • Batista-Navarro, R., Hammock, J., Ulate, W., & Ananiadou, S. (2016). A text mining framework for accelerating the semantic curation of literature. In Research and Advanced Technology for Digital Libraries - 20th International Conference on Theory and Practice of Digital Libraries, TPDL 2016, Proceedings. (Vol. 9819, pp. 459-462). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 9819). Springer-Verlag, London. DOI: 10.1007/978-3-319-43997-6_44. Publication link: c279c8a8-e87b-4cf0-b97f-61bd66d5a15f
  • Batista-Navarro, R. T., Carter, J., & Ananiadou, S. (2016). Argo: Enabling the development of bespoke workflows and services for disease annotation. Database: The Journal of Biological Databases and Curation. DOI: 10.1093/database/baw066. Publication link: f6f973f9-77c1-4089-af5d-1932ef468a09
  • Black, W., Rowley, A., Miwa, M., McNaught, J., & Ananiadou, S. (2016). Text Mining for Semantic Search in Europe PubMed Central Labs. In E. Tonkin, & G. Tourte (Eds.), Working with Text: Tools, Techniques and Approaches for Text Mining. (pp. 111-131). (Chandos Information Professional Series). Cambridge: Chandos. . Publication link: ffd7b522-aa8a-4a87-bbdd-0db96a23a11e

2015

  • Korkontzelos, I., Piliouras, D., Dowsey, A. W., & Ananiadou, S. (2015). Boosting Drug Named Entity Recognition Using an Aggregate Classifier. Artificial Intelligence in Medicine, 65(2), 145–153. DOI: 10.1016/j.artmed.2015.05.007. Publication link: bbe69443-386a-46bd-8378-fadc7f56ef3a
  • Batista-Navarro, R. T., Carter, J., & Ananiadou, S. (2015). Development of bespoke machine learning and biocuration workflows in a BioC-supporting text mining workbench. In Proceedings of the Fifth BioCreative Challenge Evaluation Workshop. (pp. 51-56). Seville, Spain. . Publication link: bf59c608-d8be-4cf9-bfc8-cbe0c881926a
  • Batista-Navarro, R. T., & Ananiadou, S. (2015). Adapting ChER for the recognition of chemical mentions in patents. In Proceedings of the Fifth BioCreative Challenge Evaluation Workshop. (pp. 149-153). Seville, Spain. . Publication link: b1983e8a-58cf-40b6-b536-d9a9cc4e4851
  • Ananiadou, S., Kevin, C. (Ed.), Dina, D-F. (Ed.), Ananiadou, S. (Ed.), & Jun-ichi, T. (Ed.) (2015). Event Extraction in pieces: tackling the partial event identification problem on unseen corpora. In C. Kevin, D-F. Dina, A. Sophia, & T. Jun-ichi (Eds.), Biomedical Natural Language Processing. (pp. 31-41). ACL. . Publication link: e8d9ba07-9a62-454e-a111-5341b6e5beb8
  • Xu, Y., Chen, L., Wei, J., Ananiadou, S., Fan, Y., Qian, Y., ... Tsujii, J. (2015). Bilingual term alignment from comparable corpora in English discharge summary and Chinese discharge summary. B M C Bioinformatics, 16, [149]. DOI: 10.1186/s12859-015-0606-0. Publication link: daecf9c4-1897-42e9-bcf2-937613e6fee2
  • Batista-Navarro, R. T., Carter, J., & Ananiadou, S. (2015). Semi-automatic curation of chronic obstructive pulmonary disease phenotypes using Argo. In Proceedings of the Fifth BioCreative Challenge Evaluation Workshop. (pp. 406-408). Seville, Spain. . Publication link: cd5f1641-f268-4bf0-b57e-d4ba558fc25a
  • Batista-Navarro, R. T., & Ananiadou, S. (2015). Augmenting the Medical Subject Headings vocabulary with semantically rich variants to improve disease mention normalisation. In Proceedings of the Fifth BioCreative Challenge Evaluation Workshop. (pp. 311-316). Seville, Spain. . Publication link: cb6633d1-0c2c-446c-bf4c-880326e9dc1d
  • Miwa, M., & Ananiadou, S. (2015). Adaptable, High Recall, Event Extraction System with Minimal Configuration. B M C Bioinformatics, 16(10:S7), [PMID: 26201408]. DOI: 10.1186/1471-2105-16-S10-S7. Publication link: d00e2b91-d57d-423e-9cdc-1b0a875ee606
  • Batista-Navarro, R., Rak, R., & Ananiadou, S. (2015). Optimising chemical named entity recognition with pre-processing analytics, knowledge-rich features and heuristics. Journal of Cheminformatics, 7((Suppl 1): S6). DOI: 10.1186/1758-2946-7-S1-S6. Publication link: 1be8bd84-6a17-4df5-a952-b3ee1760ff48
  • O'Mara-Eves, A., Thomas, J., McNaught, J., Miwa, M., & Ananiadou, S. (2015). Using text mining for study identification in systematic reviews: a systematic review of current approaches. Systematic Reviews, 4(5). DOI: 10.1186/2046-4053-4-5. Publication link: 195249ea-380c-4499-9132-b5401626d4a2
  • Batista-Navarro, R. T., Ulate, W., Hammock, J., Kontonatsios, G., Rose-Sandler, T., & Ananiadou, S. (2015). Unlocking knowledge in biodiversity legacy literature through automatic semantic metadata extraction. In Proceedings of the TDWG 2015 Annual Conference.. Publication link: 07e7da04-a24a-4718-b591-9206bdc0c1fe
  • Batista-Navarro, R. T., Nawaz, R., Zerva, C., & Ananiadou, S. (2015). Bridging text-mined biomolecular events to pathway models using approximate subgraph matching techniques. In Proceedings of the 16th International Conference on Systems Biology, Singapore.. Publication link: 11067846-5932-4dbd-9792-7a91358036bb
  • Mo, Y., Kontonatsios, G., & Ananiadou, S. (2015). Supporting Systematic Reviews Using LDA-based Document Representations. Systematic Reviews, 24(6). . Publication link: 399dd8b4-8ca6-41a3-93fa-8dc96c4e35bf
  • Bollegala, D., Kontonatsios, G., & Ananiadou, S. (2015). A Cross-lingual Similarity Measure for Detecting Biomedical Term Translations. P L o S One. DOI: 10.1371/journal.pone.0126196. Publication link: 35dfb126-e11a-43d0-8647-cd542339633f
  • Alnazzawi, N., Thompson, P., Batista-Navarro, R. T., & Ananiadou, S. (2015). Using text mining techniques to extract phenotypic information from the PhenoCHF corpus. B M C Medical Informatics and Decision Making, 15(Suppl 2). DOI: 10.1186/1472-6947-15-S2-S3, 10.1186/1472-6947-15-S2-S3. Publication link: 433dafb1-91ec-4b66-bfbe-43d5ca1c0f8a
  • Ananiadou, S., Thompson, P., Nawaz, R., McNaught, J., & Kell, D. (2015). Event-based text mining for biology and functional genomics. Briefings in Functional Genomics, 14(3), 213-30. DOI: 10.1093/bfgp/elu015. Publication link: 9284975e-2b46-4311-b108-476722f296f5 | PubMed:24907365
  • Mihaila, C., Batista-Navarro, R. T., Alnazzawi, N., Kontonatsios, G., Korkontzelos, I., Rak, R., ... Ananiadou, S. (2015). Mining the biomedical literature. In Healthcare Data Analytics. (pp. 251-308). CRC Press. . Publication link: 9128e5ac-2e04-4ebb-91ec-9599153ecf77
  • Fu, X., Batista-Navarro, R. T., Rak, R., & Ananiadou, S. (2015). Supporting the annotation of chronic obstructive pulmonary disease (COPD) phenotypes with text mining workflows. Journal of Biomedical Semantics, 6(8). DOI: 10.1186/s13326-015-0004-6. Publication link: 69394412-3296-438f-8fd7-8c0933e53755
  • Rosner, M., Attard, A., Thompson, P., Gatt, A., & Ananiadou, S. (2015). Extending a Tool Resource Framework with U-Compare. In Human Language Technology Challenges for Computer Science and Linguistics. (Vol. 8387, pp. 315-326). (Lecture Notes in Computer Science). Springer Verlag. . Publication link: 5211e123-ef8c-4d21-b47a-d49152269011

2014

  • Kontonatsios, G., Mihaila, C., Korkontzelos, I., Thompson, P., & Ananiadou, S. (2014). A hybrid approach to compiling bilingual dictionaries of medical terms from parallel corpora. In Statistical Language and Speech Processing. (pp. 57-69). Springer Verlag. . Publication link: 522b399f-8fd2-48c9-b959-10b9eb1e6209
  • Mihaila, C., Mihăilă, C., & Ananiadou, S. (2014). Semi-supervised learning of causal relations in biomedical scientific discourse. BioMedical Engineering OnLine, 13(Suppl 2). DOI: 10.1186/1475-925X-13-S2-S1. Publication link: 62cdb675-0b04-4405-b9e0-accbd8fa4d19
  • Kontonatsios, G., Mih{\u{a}}il{\u{a}}, C., Korkontzelos, I., Thompson, P., & Ananiadou, S. (2014). A hybrid approach to compiling bilingual dictionaries of medical terms from parallel corpora. In Statistical Language and Speech Processing, Second International Conference, SLSP 2014. (Vol. 8791, pp. 57-69). (LNCS/LNAI). Springer Verlag. DOI: 10.1007/978-3-319-11397-5_4. Publication link: 73dfc047-60b4-4586-8697-e717e4eb9fef
  • Mihaila, C., & Ananiadou, S. (2014). The Meta-knowledge of Causality in Biomedical Scientific Discourse. In Proceedings of the Ninth International Conference on Language Resources and Evaluation (LREC'14). (pp. 1984-1991). European Language Resources Association (ELRA). . Publication link: 72285c8e-3da6-48e2-9d3c-9de3cc788d96
  • Rak, R., Batista-Navarro, R. T., Carter, J., Rowley, A., & Ananiadou, S. (2014). Processing Biological Literature with Customisable Web Services Supporting Interoperable Formats. Database, 2014. DOI: 10.1093/database/bau064. Publication link: 78c3a693-1709-4974-9147-7cb82058d8d5
  • Stenetorp, P., Pyysalo, S., Ananiadou, S., & Tsujii, J. (2014). Generalising semantic category disambiguation with large lexical resources for fun and profit. Journal of Biomedical Semantics, 5. DOI: 10.1186/2041-1480-5-26. Publication link: 412f4138-eb18-4fe3-9f57-b3f64635ebba
  • Mu, T., Goulermas, J. Y., Korkontzelos, I., & Ananiadou, S. (2014). Descriptive Document Clustering via Discriminant Learning in a Co-Embedded Space of Multilevel Similarities. Journal of the Association for Information Science and Technology, 67(1), 106-133. DOI: 10.1002/asi.23374. Publication link: 3ad0b785-d38f-4e5f-83fd-ee3d53deb920
  • Kontonatsios, G., Korkontzelos, I., Tsujii, J., & Ananiadou, S. (2014). Combining String and Context Similarity for Bilingual Term Alignment from Comparable Corpora. In Proceedings of the 2014 Conference on Empirical Methods in Natural Language Processing (EMNLP). (pp. 1701-1712). Association for Computational Linguistics. . Publication link: 2ba990e2-ce90-4889-8f0c-4a24ea352421
  • Pyysalo, S., & Ananiadou, S. (2014). Anatomical Entity Mention Recognition at Literature Scale. Bioinformatics, 30(6), 868-875. DOI: 10.1093/bioinformatics/btt580. Publication link: 07b835e3-6fc4-4c5a-bd67-731d998e71b5
  • Xu, Y., Hua, J., Ni, Z., Chen, Q., Fan, Y., Ananiadou, S., ... Tsujii, J. (2014). Anatomical entity recognition with a hierarchical framework augmented by external resource. P L o S One, 9(10), [e108396]. DOI: 10.1371/journal.pone.0108396. Publication link: 2056dcf6-f340-4716-91f7-f30242d8e5bd
  • Rak, R., Rowley, A., Carter, J., Batista-Navarro, R. T., & Ananiadou, S. (2014). Interoperability and Customisation of Annotation Schemata in Argo. In Proceedings of the Ninth International Conference on Language Resources and Evaluation (LREC'14). (pp. 3837-3842). European Language Resources Association (ELRA). . Publication link: 1c05b0a7-2d50-49ec-9fae-212924bde20a
  • Rehm, G., Uszkoreit, H., Ananiadou, S., Bel, N., Bielevičiené, A., Borin, L., ... Zabarskaitė, J. (2014). The Strategic Impact of META-NET on the Regional, National and International Level. In N. Calzolari, K. Choukri, T. Declerck, H. Loftsson, B. Maegaard, J. Mariani, & A. Moreno (Eds.), Proceedings of the Ninth International Conference on Language Resources and Evaluation (LREC'14). (pp. 1517-1524). European Language Resources Association. . Publication link: f1e4bd7c-f556-47a2-8649-9beb45c8de35
  • Gou, Y., Graff, F., Rossiter, P., Talo, F., Vartak, V., Coleman, L-A., ... Pi, X. (2014). Europe PMC: a full-text literature database for the life sciences and platform for innovation. Nucleic Acids Research, 1-7. DOI: 10.1093/nar/gku1061. Publication link: fdf340ae-5e58-49bf-9a13-dfb3f2b0ae5c
  • Kontonatsios, G., Korkontzelos, I., Tsujii, J., & Ananiadou, S. (2014). Using a Random Forest Classifier to Compile Bilingual Dictionaries of Technical Terms from Comparable Corpora. In Proceedings of the 14th Conference of the European Chapter of the Association for Computational Linguistics, volume 2: Short Papers. (pp. 111-116). Association for Computational Linguistics. . Publication link: cee26dd0-0971-4cbc-a6e9-26b388c71a8a
  • Mu, T., Miwa, M., Tsujii, J., & Ananiadou, S. (2014). Discovering robust embeddings in (Dis)similarity space for high-dimensional linguistic features. Computational Intelligence, 30(2), 285-315. DOI: 10.1111/j.1467-8640.2012.00452.x. Publication link: cf510b99-ae6f-4bc1-8909-f65e300bdad7
  • Korkontzelos, I., & Ananiadou, S. (2014). Term Extraction. Oxford Handbook of Computational Linguistics (2nd Ed.). DOI: 10.1093/oxfordhb/9780199573691.013.004. Publication link: e900563d-0b15-46e8-9a17-0ea0e582b99b
  • Miwa, M., Thomas, J., O'Mara-Eves, A., & Ananiadou, S. (2014). Reducing systematic review workload through certainty-based screening. Journal of Biomedical Informatics, 51, 242-253. DOI: 10.1016/j.jbi.2014.06.005. Publication link: a48c4eab-830c-4751-8dca-9bda434e8c72
  • Rak, R., Batista-Navarro, R. T., Rowley, A., Carter, J., & Ananiadou, S. (2014). Text Mining-assisted Biocuration Workflows in Argo. Database, 1–14. DOI: 10.1093/database/bau070, 10.1093/database/bau070. Publication link: b31a7913-4afc-4ddb-912c-1117b25f9a14
  • Alnazzawi, N., Thompson, P., & Ananiadou, S. (2014). Building a semantically annotated corpus for congestive heart and renal failure from clinical records and the literature. In Proceedings of the 5th International Workshop on Health Text Mining and Information Analysis (Louhi). (pp. 69-74). Association for Computational Linguistics. . Publication link: c2bbd9bf-79b8-47db-8927-ef3cd5f5bece
  • Fu, X., & Ananiadou, S. (2014). Improving the Extraction of Clinical Concepts from Clinical Records. In Proceedings of the 4th Workshop on Building and Evaluating Resources for Health and Biomedical Text Processing. Reykjavik, Iceland: European Language Resources Association (ELRA). . Publication link: c4bab38f-7c87-4899-a50b-ee68aa64cd8a
  • Fu, X., Batista-Navarro, R. T., Rak, R., & Ananiadou, S. (2014). A Strategy for Annotating Clinical Records with Phenotypic Information relating to the Chronic Obstructive Pulmonary Disease. In Proceedings of the Phenotype day at ISMB 2014. (pp. 1-8). Publication link: c0485033-552f-43bb-bbcc-d45e69c86466
  • Korkontzelos, I., & Ananiadou, S. (2014). Locating Requests among Open Source Software Communication Messages. In Proceedings of the Ninth International Conference on Language Resources and Evaluation (LREC'14). (pp. 1347-1354). European Language Resources Association (ELRA). . Publication link: c172d176-0ca8-4f93-8793-d32253aea7d4
  • Batista-Navarro, R. T., Islam, A., Ulate, W., Hammock, J., Soto, A., Ananiadou, S., & Milios, E. (2014). Enriching the legacy literature with OCR corrections and text-mined semantic metadata. In Proceedings of the TDWG 2014 Annual Conference.. Publication link: c0b2cdfe-1ff1-45ec-ac4f-8473bf2f00d8
  • Miwa, M., Thompson, P., Korkontzelos, I., & Ananiadou, S. (2014). Comparable Study of Event Extraction in Newswire and Biomedical Domains. In Proceedings of Coling 2014. (pp. 2270-2279). Publication link: b9981dbf-c8b5-4e29-8a9e-40b5d0fb7080

2013

  • Thompson, P., Nawaz, R., Korkontzelos, I., Black, W., McNaught, J., & Ananiadou, S. (2013). News search using discourse analytics. In Proceedings of the DigitalHeritage 2013 - Federating the 19th Int'l VSMM, 10th Eurographics GCH, and 2nd UNESCO Memory of the World Conferences, Plus Special Sessions fromCAA, Arqueologica 2.0 et al.|Proc. Digit. Herit. Int. Congr., DigitalHeritage - Fed. Int. VSMM, Eurographics GCH, UNESCO Mem. World Conf., Plus Spec. Ses. (Vol. 1, pp. 597-604). Piscataway, NJ: IEEE. DOI: 10.1109/DigitalHeritage.2013.6743801. Publication link: c234c92d-a12b-489b-835d-61ef14cee0d8
  • Mih{\u{a}}il{\u{a}}, C., & Ananiadou, S. (2013). What causes a causal relation? Detecting causal triggers in biomedical scientific discourse. In I. Nikolova, E. Vecchi, A. Dey, & S. Krause (Eds.), 51st Annual Meeting of the Association for Computational Linguistics Proceedings of the Student Research Workshop. (pp. 38-45). Association for Computational Linguistics. . Publication link: b32bb001-a687-489f-93fc-192d52794cf8
  • Mihǎilǎ, C., Ohta, T., Pyysalo, S., & Ananiadou, S. (2013). BioCause: Annotating and analysing causality in the biomedical domain. BMC Bioinformatics, 14, [2]. DOI: 10.1186/1471-2105-14-2. Publication link: ac0972fc-0710-465d-8d95-390b308ae18c
  • Ohta, T., Pyysalo, S., Rak, R., Rowley, A., Chun, H-W., Jung, S. -J., ... Ananiadou, S. (2013). Overview of the Pathway Curation (PC) task of BioNLP Shared Task 2013. In Proceedings of the BioNLP Shared Task 2013 Workshop. (pp. 67-75). Association for Computational Linguistics. . Publication link: 9f4307bb-ed2d-444e-a21b-9933b961f4b3
  • Ananiadou, S., Thompson, P., & Nawaz, R. (2013). Mining events from the literature for bioinformatics applications. ACM SIGWEB Newsletter, Autumn 2013. . Publication link: a133e6bc-0db0-4e85-89d1-d26772c5c687
  • Ananiadou, S., Thompson, P., & Nawaz, R. (2013). Enhancing search: Events and their discourse context. 318-334. 14th Annual Conference on Intelligent Text Processing and Computational Linguistics, CICLing 2013, Samos, .DOI: 10.1007/978-3-642-37256-8_27. Publication link: e1bf77df-5d06-4e5f-98c8-50e19158a2b2
  • Batista-Navarro, R. T., Kontonatsios, G., Mihaila, C., Thompson, P., Nawaz, R., Korkontzelos, I., & Ananiadou, S. (2013). Supporting Discourse Phenomena in an Interoperable NLP Framework. In host publication.. Publication link: cd8dcfd4-6be7-41a3-a0b5-134362040738
  • Rak, R., & Ananiadou, S. (2013). Making UIMA Truly Interoperable with SPARQL. In Proceedings of the 7th Linguistic Annotation Workshop and Interoperability with Discourse. (pp. 88-97). Publication link: d468c3dc-044e-4f28-9bab-f8beacdb0c59
  • Kontonatsios, G., Korkontzelos, I., Tsujii, J., & Ananiadou, S. (2013). Using Random Forest to recognise translation equivalents of biomedical terms across languages. In Proceedings of the Sixth Workshop on Building and Using Comparable Corpora. (pp. 95-104). Association for Computational Linguistics. . Publication link: fd594c3d-7d75-4263-bd06-8de9da305cee
  • Thomas, J., O'Mara-Eves, A., McNaught, J., & Ananiadou, S. (2013). The potential of text mining to reduce screening workload in systematic reviews: a retrospective evaluation. 5-5. Poster session presented at 21st Cochrane Colloquium, Quebec, .. Publication link: fc5da96d-54a7-40b5-b41b-571c413eeebb
  • Nawaz, R., Thompson, P., & Ananiadou, S. (2013). Towards Event-based Discourse Analysis of Biomedical Text. International Journal of Computational Linguistics and Applications, 4(2), 101-120. . Publication link: f55e9056-4229-4b62-baf4-95af59501c1e
  • Rutter, M., Ananiadou, S., Ohta, T., & Rutter, M. K. (2013). Text Mining Supporting Search for Knowledge Discovery in Diabetes. Current Cardiovascular Risk Reports, 7(1), 1-8. DOI: 10.1007/s12170-012-0288-3. Publication link: 157385a7-8973-4876-bdd3-1ccd60107927
  • Ananiadou, S., Thompson, P., & Nawaz, R. (2013). Enhancing Search: Events and their Discourse Context. In Computational Linguistics and Intelligent Text Processing. (Vol. 7817, pp. 318-334). (Lecture Notes in Computer Science). Springer Verlag. DOI: 10.1007/978-3-642-37256-8_27. Publication link: 18ea668e-394f-4a00-8897-74595f479029
  • Miwa, M., Pyysalo, S., Ohta, T., & Ananiadou, S. (2013). Wide coverage biomedical event extraction using multiple partially overlapping corpora. BMC Bioinformatics, 14(175). DOI: 10.1186/1471-2105-14-175. Publication link: 22fd4ab9-980c-42d5-92c0-9587fe0b2c51
  • Rak, R., Batista-Navarro, R. T., Rowley, A., Miwa, M., Carter, J., & Ananiadou, S. (2013). NaCTeM’s BioC Modules and Resources for BioCreative IV. In Proceedings of the Fourth BioCreative Challenge Evaluation Workshop. (Vol. 1, pp. 61-67). Publication link: 07d8ae4b-470b-43e9-8572-798c3f64f83c
  • Rak, R., Batista-Navarro, R. T., Rowley, A., Carter, J., & Ananiadou, S. (2013). Customisable Curation Workflows in Argo. In Proceedings of the Fourth BioCreative Challenge Evaluation Workshop. (Vol. 1, pp. 270-278). Publication link: 12b1457a-63e5-46fc-9ede-15998bc17f4f
  • Mihǎilǎ, C., & Ananiadou, S. (2013). A hybrid approach to recognising discourse causality in the biomedical domain. In Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM) 2013. (pp. 361-366). IEEE. DOI: 10.1109/BIBM.2013.6732519. Publication link: 11d26261-1a3b-44bd-b69a-1b683a13a459
  • Batista-Navarro, R. T., Rak, R., & Ananiadou, S. (2013). NaCTeM CTD Web Services. In Proceedings of the Fourth BioCreative Challenge Evaluation Workshop. (Vol. 1, pp. 85-89). Publication link: 34d6062d-6f23-4a40-8232-250f68f2b745
  • Van Landeghem, S., Björne, J., Wei, C. H., Hakala, K., Pyysalo, S., Ananiadou, S., ... Ginter, F. (2013). Large-scale event extraction from literature with multi-level gene normalization. PLoS ONE, 8(4). DOI: 10.1371/journal.pone.0055814. Publication link: 32ea34e0-fe1f-4786-adb9-53687c139ba5
  • Miwa, M., & Ananiadou, S. (2013). NaCTeM EventMine for BioNLP 2013 CG and PC tasks. In Proceedings of BioNLP Shared Task 2013 Workshop. (pp. 94-98). Association for Computational Linguistics. . Publication link: 3ac4b36f-5c1b-4684-ab0b-9079430abdd8
  • Mihaila, C., Kontonatsios, G., Thompson, P., Batista-Navarro, R. T., Mihaila, C., Korkontzelos, I., ... Hussain, S. (Ed.) (2013). Extending an interoperable platform to facilitate the creation of multilingual and multimodal NLP applications. In M. Butt, & S. Hussain (Eds.), Proceedings of the System Demonstration Session at The 51st Annual Meeting of the Association for Computational Linguistics. (pp. 43-48). Association for Computational Linguistics. . Publication link: 3d66b057-6d0e-452d-9adf-51d48c1997e9
  • Nawaz, R., Thompson, P., & Ananiadou, S. (2013). Negated BioEvents: Analysis and Identification. BMC Bioinformatics, 14(1). DOI: doi:10.1186/1471-2105-14-14. Publication link: 3d881840-2bb1-48ad-8bfc-6d1a04645fe0
  • Batista-Navarro, R. T., Kontonatsios, G., Mihǎilǎ, C., Thompson, P., Rak, R., Nawaz, R., ... Ananiadou, S. (2013). Facilitating the analysis of discourse phenomena in an interoperable NLP platform. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)|Lect. Notes Comput. Sci.. (Vol. 7816, pp. 559-571). (Lecture Notes in Computer Science). Berlin, Germany: Springer Berlin Heidelberg. DOI: 10.1007/978-3-642-37247-6_45. Publication link: 4a56f75f-ae30-4b93-88af-50cefd4a1169
  • Pyysalo, S., Ohta, T., & Ananiadou, S. (2013). Overview of the Cancer Genetics (CG) task of BioNLP Shared Task 2013. In Proceedings of the BioNLP Shared Task 2013 Workshop. (pp. 58-66). Association for Computational Linguistics. . Publication link: 4d770228-292e-4a1e-a04c-319351f8b324
  • Pyysalo, S., Ginter, F., Moen, H., Salakoski, T., & Ananiadou, S. (2013). Distributional Semantics Resources for Biomedical Text Processing. In Proceedings of LBM 2013. (pp. 39-44). Publication link: 8b865ebe-417a-41fb-acb7-241efe6a5490
  • Mih{\u{a}}il{\u{a}}, C., Ananiadou, S., & Mihǎilǎ, C. (2013). Recognising Discourse Causality Triggers in the Biomedical Domain. Journal of Bioinformatics and Computational Biology, 11(6), [1343008]. DOI: 10.1142/S0219720013430087. Publication link: 868e3424-d42d-4e89-ab87-e8358a0fca86
  • Batista-Navarro, R. T., Rak, R., & Ananiadou, S. (2013). Chemistry-specific Features and Heuristics for Developing a CRF-based Chemical Named Entity Recogniser. In Proceedings of the Fourth BioCreative Challenge Evaluation Workshop. (Vol. 2, pp. 55-59). Publication link: 87835651-2c0b-4dc3-a9b2-4057009a4cb9
  • Restificar, A., Korkontzelos, I., & Ananiadou, S. (2013). A method for discovering and inferring appropriate eligibility criteria in clinical trial protocols without labeled data. BMC Medical Informatics and Decision Making, 13(Suppl 1). DOI: 10.1186/1472-6947-13-S1-S6. Publication link: 7f225dbc-4440-49f7-a5a5-0afa3b2ca3b4
  • Rak, R., Rowley, A., Carter, J., & Ananiadou, S. (2013). Development and Analysis of NLP Pipelines in Argo. In Proceedings of the 51st Annual Meeting of the Association for Computational Linguistics: System Demonstrations. (pp. 115-120). Publication link: 79288ae2-428a-4bfd-b058-6bdeaf3aa8cf
  • Mihaila, C., Kontonatsios, G., Batista-Navarro, R. T., Thompson, P., Korkontzelos, I., & Ananiadou, S. (2013). Towards a Better Understanding of Discourse: Integrating Multiple Discourse Annotation Perspectives Using UIMA. In Proceedings of the 7th Linguistic Annotation Workshop and Interoperability with Discourse. (pp. 79-88). Publication link: 535590d0-7e51-482c-9963-5fad56c39def
  • Miwa, M., Ohta, T., Rak, R., Rowley, A., Kell, D. B., Pyysalo, S., & Ananiadou, S. (2013). A method for integrating and ranking the evidence for biochemical pathways by mining reactions from text.Bioinformatics (Oxford, England), 29(13), i44-i52. DOI: 10.1093/bioinformatics/btt227. Publication link: 54206554-9942-4ff4-bded-a6bb9aca5a34 | PubMed:23813008

2012

  • Pyysalo, S., Ohta, T., Rak, R., Sullivan, D., Mao, C., Wang, C., ... Ananiadou, S. (2012). Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011.BMC Bioinformatics, 13, S2. DOI: 10.1186/1471-2105-13-S11-S2. Publication link: 4c4bb3b9-d8df-4514-b89c-27107f99b14b
  • Rak, R., Kolluru, B., & Ananiadou, S. (2012). Building trainable taggers in a web-based, UIMA-supported NLP workbench. In Proceedings of the 50th Annual Meeting of the Association for Computational Linguistics (ACL 2012). (pp. 121-126). Publication link: 3479af6b-423c-4fc1-b289-6aaacff96e17
  • Nawaz, R., Thompson, P., & Ananiadou, S. (2012). Meta-Knowledge Annotation at the Event Level: Comparison between Abstracts and Full Papers. In Proceedings of the Third Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM 2012). (pp. 24-31). Publication link: 007640dd-e86a-4de5-a5f4-cb4d302372b0
  • Ananiadou, S., McNaught, J., Thompson, P., Rehm, G. (Ed.), & Uszkoreit, H. (Ed.) (2012). The English Language in the Digital Age. In White Paper Series. Springer Verlag. . Publication link: 12e7d880-0439-450d-8532-13ee534ba03d
  • Stenetorp, P., Pyysalo, S., Ohta, T., Ananiadou, S., & Tsujii, J. (2012). Bridging the Gap Between Scope-based and Event-based Negation/Speculation Annotations: A Bridge Not Too Far. In Proceedings of ExProM 2012. (pp. 47-56). Publication link: 21517439-af5c-4ea7-97e7-46c0895f91db
  • Kontonasios, G., Korkontzelos, I., Ananiadou, S., & Kontonatsios, G. (2012). Developing multilingual text mining workflows in UIMA and U-compare. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)|Lect. Notes Comput. Sci.. (Vol. 7337, pp. 82-93). (Lecture Notes in Computer Science). Berlin, Heidelberg: Springer Berlin / Heidelberg. DOI: 10.1007/978-3-642-31178-9_8. Publication link: 19e752cf-42dc-4f2f-8ab4-975899f54e1b
  • Kim, J-D., Pyysalo, S., Nédellec, C., Ananiadou, S., & Tsujii, J. (Eds.) (2012). Selected articles from the BioNLP Shared Task 2011. In host publication. (Vol. 13). Publication link: 9af2a029-d0f6-4cc2-bc53-206a62f4ab5c
  • Rak, R., Rowley, A., & Ananiadou, S. (2012). Collaborative Development and Evaluation of Text-processing Workflows in a UIMA-supported Web-based Workbench. In Proceedings of the Eighth International Conference on Language Resources and Evaluation (LREC 2012). (pp. 2971-2976). Publication link: 88561180-1ddc-4959-9b2a-bdd92c92c437
  • Mihaila, C., Batista-Navarro, R. T., & Ananiadou, S. (2012). Analysing Entity Type Variation across Biomedical Subdomains. In Proceedings of the Third Workshop on Building and Evaluating Resources for Biomedical Text Mining (BioTxtM 2012). (pp. 1-7). Publication link: 878ac435-6710-4274-9e4a-98ba1ccdbc67
  • Miwa, M., Thompson, P., & Ananiadou, S. (2012). Boosting automatic event extraction from the literature using domain adaptation and coreference resolution. Bioinformatics, 28(13), 1759-1765. [bts237]. DOI: 10.1093/bioinformatics/bts237. Publication link: 52f0d697-b455-4566-82e7-b0b415cfb7f2
  • Nawaz, R., Thompson, P., & Ananiadou, S. (2012). Identification of Manner in Bio-Events. In Proceedings of the Eighth International Conference on Language Resources and Evaluation (LREC 2012). (pp. 3505-3510). Publication link: 511da710-b6c9-4da2-9032-a63a76338098
  • Liakata, M., Thompson, P., de Waard, A., Nawaz, R., Pander Maat, H., & Ananiadou, S. (2012). A Three-Way Perspective on Scientific Discourse Annotation for Knowledge Extraction. In Proceedings of the ACL Workshop on Detecting Structure in Scholarly Discourse (DSSD). (pp. 37-46). Publication link: 5692535a-15ff-4cf2-bf86-ee267385e5e8
  • Pyysalo, S., Stenetorp, P., Ohta, T., Kim, J-D., & Ananiadou, S. (2012). New Resources and Perspectives for Biomedical Event Extraction. In Proceedings of BioNLP 2012. (pp. 100-108). Publication link: 602aacc3-cf8b-44b2-96ef-a4fe086593ea
  • Rak, R., Rowley, A., Black, W., & Ananiadou, S. (2012). Argo: An integrative, interactive, text mining-based workbench supporting curation. Database, 2012, [bas010]. DOI: 10.1093/database/bas010. Publication link: 6b9c364d-29f4-4913-aa6d-dc9c88bbb472
  • Miwa, M., Thompson, P., McNaught, J., Kell, D., & Ananiadou, S. (2012). Extracting semantically enriched events from biomedical literature.BMC Bioinformatics, 13(1), [108]. DOI: 10.1186/1471-2105-13-108. Publication link: c670d5bd-a7d1-40d2-8623-ce1e5b03bce1 | PubMed:22621266
  • Pyysalo, S., Ohta, T., Miwa, M., Cho, H. C., Tsujii, J., & Ananiadou, S. (2012). Event extraction across multiple levels of biological organization. Bioinformatics, 28(18), 575-581. [bts407]. DOI: 10.1093/bioinformatics/bts407. Publication link: d6cd8757-d66d-4019-adc2-3f0360c3436d
  • Batista-Navarro, R. T., & Ananiadou, S. (2012). What's in a Name? Entity Type Variation across Two Biomedical Subdomains. In Proceedings of the Student Research Workshop at the 13th Conference of the European Chapter of the Association for Computational Linguistics. (pp. 38-45). Publication link: d49f1568-68e2-4858-9def-2c6190c402cd
  • Mu, T., Goulermas, J. Y., Tsujii, J. I., & Ananiadou, S. (2012). Proximity-based frameworks for generating embeddings from multi-output data. IEEE Transactions on Pattern Analysis and Machine Intelligence, 34(11), 2216-2232. [6127879]. DOI: 10.1109/TPAMI.2012.20. Publication link: d58279cf-7ce4-4e1e-a75b-e97cc168fece
  • Björne, J., Van Landeghem, S., Pyysalo, S., Ohta, T., Ginter, F., Van de Peer, Y., ... Salakoski, T. (2012). PubMed-Scale Event Extraction for Post-Translational Modifications, Epigenetics and Protein Structural Relations. In Proceedings of BioNLP 2012. (pp. 82-90). Publication link: e6157ac9-c553-466a-9782-1e789cc4251b
  • Ohta, T., Pyysalo, S., Tsujii, J., & Ananiadou, S. (2012). Open-domain Anatomical Entity Mention Detection. In Proceedings of the ACL Workshop on Detecting Stucture in Scholarly Discourse (DSSD). (pp. 27-36). Publication link: ecb610a9-4d86-44d5-867d-c715945fb81e
  • Wang, X., Thompson, P., & Ananiadou, S. (2012). Biomedical Chinese-English CLIR Using an Extended CMeSH Resource to Expand Queries. In Proceedings of the Eighth International Conference on Language Resources and Evaluation (LREC 2012). (pp. 1148-1155). Publication link: ea4a37c6-c164-499c-921e-76543e917c77
  • Stenetorp, P., Pyysalo, S., Topi{\'{c}}, G., Ohta, T., Ananiadou, S., & Tsujii, J. (2012). brat: a Web-based Tool for NLP-Assisted Text Annotation. In Proceedings of the Demonstrations at the 13th Conference of the European Chapter of the Association for Computational Linguistics. (pp. 102-107). Association for Computational Linguistics. . Publication link: e0d2124f-935d-42ad-bb78-994df83ae540
  • Korkontzelos, I., & Ananiadou, S. (2012). ASCOT: Assisting search and creation of clinical trials. In IHI'12 - Proceedings of the 2nd ACM SIGHIT International Health Informatics Symposium|IHI - Proc. ACM SIGHIT Int. Health Informatics Symp.. (pp. 855-858). (IHI '12). ACM. DOI: 10.1145/2110363.2110472. Publication link: 9e145614-6223-4159-b2bb-43f268e7001a
  • Korkontzelos, I., Mu, T., & Ananiadou, S. (2012). ASCOT: A text mining-based web-service for efficient search and assisted creation of clinical trials. BMC Medical Informatics and Decision Making, 12(1), [S3]. DOI: 10.1186/1472-6947-12-S1-S3. Publication link: c24c4fbd-b38f-4791-a8df-a7ac807110ab
  • Black, W. J., Procter, R., Gray, S., & Ananiadou, S. (2012). A data and analysis resource for an experiment in text mining a collection of micro-blogs on a political topic. In Proceedings of the Eighth International Conference on Language Resources and Evaluation (LREC 2012). (pp. 2083-2088). European Language Resources Association (LREC). . Publication link: bc41a305-b5e9-4b01-9128-97026ac68310

2011

  • Kontonasios, G., Korkontzelos, I., Kolluru, B. K., & Ananiadou, S. (2011). Adding text mining workflows as web services to the BioCatalogue. In SWAT4LS 2011 : 4th International Workshop on Semantic Web Applications and Tools for the Life Sciences. (pp. 50-57). London: ACM. DOI: 10.1145/2166896.2166913. Publication link: bb071873-732f-4e2a-a2f5-1914c15934a4
  • Ananiadou, S., & Batista-Navarro, R. T. (2011). Discovering Potential Drugs by Extracting Biological Activities of Natural Products. In Workshop on Mining the Pharmacogenomics Literature, Pacific Symopsium on Biocomputing 2011.. Publication link: b402d53f-b5af-474e-8c7c-6841df2136f2
  • Ananiadou, S., Sullivan, D., Black, W., Levow, G. A., Gillespie, J. J., Mao, C., ... Sobral, B. (2011). Named entity recognition for bacterial type IV secretion systems. PLoS ONE, 6(3), [e14780]. DOI: 10.1371/journal.pone.0014780. Publication link: b6538b0f-1fec-4a41-af37-acd0378aeb40
  • McEntyre, J. R., Ananiadou, S., Andrews, S., Black, W. J., Boulderstone, R., Buttery, P., ... Vaughan, P. (2011). UKPMC: A full text article resource for the life sciences. Nucleic acids research., 39(1), D58-D65. DOI: 10.1093/nar/gkq1063. Publication link: c4788750-2941-4d51-b3b8-95aa852153c9 | PubMed:21062818
  • Stenetorp, P., Pyysalo, S., Ananiadou, S., & Tsujii, J. (2011). Almost Total Recall: Semantic Category Disambiguation Using Large Lexical Resources and Approximate String Matching. Proceedings of the Fourth International Symposium on Languages in Biology and Medicine (LBM 2011). . Publication link: c4a92cda-f3a2-41d9-b29d-a94054fa0210
  • Ohta, T., Pyysalo, S., Ananiadou, S., & Tsujii, J. (2011). Pathway Curation Support as an Information Extraction Task. In host publication.. Publication link: 9f0811f7-0bbe-4b23-ab36-9ab14f0785b9
  • Kolluru, B., Nakjang, S., Hirt, R. P., Wipat, A., & Ananiadou, S. (2011). Automatic extraction of microorganisms and their habitats from free text using text mining workflows. In Journal of integrative bioinformatics|J Integr Bioinform. (Vol. 8, pp. 184). Publication link: a7ea0ac9-8837-4255-aef1-402f838dbfb2
  • Kano, Y., Björne, J., Ginter, F., Salakoski, T., Buyko, E., Hahn, U., ... Tsujii, J. (2011). U-Compare bio-event meta-service: Compatible BioNLP event extraction services. BMC Bioinformatics, 12(1), [481]. DOI: 10.1186/1471-2105-12-481. Publication link: aa23b36e-56e9-429a-a5ef-c2b82a116349
  • Sasaki, Y., Wang, X., & Ananiadou, S. (2011). Extracting secondary bio-event arguments with extraction constraints. Computational Intelligence, 27(4), 702-721. DOI: 10.1111/j.1467-8640.2011.00406.x. Publication link: e70325f1-95f2-4c46-8256-0af7831cf1e4
  • Rosner, M., Attard, A., Thompson, P., Gatt, A., & Ananiadou, S. (2011). Extending a Tool Resource Framework with U-Compare. In Proceedings of the 5th Language \& Technology Conference (LTC'2011).. Publication link: c89c5f6e-8252-4fb0-80b1-edcbe59e507e
  • Pyysalo, S., Ohta, T., & Ananiadou, S. (2011). Anatomical Entity Recognition with Open Biomedical Ontologies. In host publication.. Publication link: ca355534-8d92-46b4-ad29-adcb76506075
  • Kocbek, S., Saetre, R., Stiglic, G., Kim, J-D., Pernek, I., Tsuruoka, Y., ... Tsujii, J. (2011). Analysis of gene ranking algorithms with extraction of relevant biomedical concepts from Pubmed publications. In Proceedings of the 1st IEEE International Conference on Computational Advances in Bio and medical Sciences (ICCABS).. Publication link: cc136286-e6fc-4cfe-8a80-43b4fd01c8d1
  • Thomas, J., McNaught, J., & Ananiadou, S. (2011). Applications of text mining within systematic reviews. Research Synthesis Methods, 2(1), 1-14. DOI: 10.1002/jrsm.27. Publication link: 67ce1683-00ed-4b70-999a-522ba95b77e6
  • Kolluru, B., Hawizy, L., Murray-Rust, P., Tsujii, J., & Ananiadou, S. (2011). Using workflows to explore and optimise named entity recognition for chemistry. PLoS ONE, 6(5), [e20181]. DOI: 10.1371/journal.pone.0020181. Publication link: 66762b7e-59ac-4cd6-824c-41c1274e0429
  • Thompson, P., Nawaz, R., McNaught, J., & Ananiadou, S. (2011). Enriching a biomedical event corpus with meta-knowledge annotation. BMC Bioinformatics, 12, [393]. DOI: 10.1186/1471-2105-12-393. Publication link: 7164ecd5-2af4-44a5-bac6-2d8e6b6e7d61
  • Batista-Navarro, R. T., & Ananiadou, S. (2011). Adapting the Cluster Ranking Supervised Model to Resolve Coreferences in the Drug Literature. In Proceedings of the Fourth International Symposium on Languages in Biology and Medicine (LBM 2011). (pp. 71-77). Publication link: 5f00c3f7-71e2-498f-a1d5-6f5e796785f1
  • Batista-Navarro, R. T., Cohen, K. (Ed.), Demner-Fushman, D. (Ed.), Ananiadou, S. (Ed.), Pestian, J. (Ed.), Tsujii, J. (Ed.), & Webber, B. (Ed.) (2011). Building a coreference-annotated corpus from the domain of biochemistry. In K. Cohen, D. Demner-Fushman, S. Ananiadou, J. Pestian, J. Tsujii, & B. Webber (Eds.), Proceedings of the 2011 Workshop on Biomedical Natural Language Processing, ACL-HLT 2011. (pp. 83-91). Association for Computational Linguistics. . Publication link: 5257013d-10a8-42cd-9335-177b797e6e0c
  • Kocbek, S., Sætre, R., Stiglic, G., Kim, J. D., Pernek, I., Tsuruoka, Y., ... Tsujii, J. (2011). AGRA: Analysis of gene ranking algorithms. Bioinformatics, 27(8), 1185-1186. [btr097]. DOI: 10.1093/bioinformatics/btr097. Publication link: 76202ab2-c254-4c8a-a10f-fe48c65b1741
  • Pyysalo, S., Ohta, T., Rak, R., Sullivan, D., Mao, C., Wang, C., ... Ananiadou, S. (2011). Overview of the Infectious Diseases (ID) task of BioNLP Shared Task 2011. In host publication.. Publication link: 79174087-2411-45e1-83ed-82d0c8a0b558
  • Thompson, P., McNaught, J., Montemagni, S., Calzolari, N., del Gratta, R., Lee, V., ... Ananiadou, S. (2011). The BioLexicon: A large-scale terminological resource for biomedical text mining. BMC Bioinformatics, 12, [397]. DOI: 10.1186/1471-2105-12-397. Publication link: 959e688d-8ae6-4522-ad7c-5a84525b8129
  • Wang, X., Rak, R., Restificar, A., Nobata, C., Rupp, C. J., Batista-Navarro, R. T. B., ... Ananiadou, S. (2011). Detecting experimental techniques and selecting relevant documents for protein-protein interactions from biomedical literature. BMC Bioinformatics, 12(8), [S11]. DOI: 10.1186/1471-2105-12-S8-S11. Publication link: 919e4258-3458-4108-939a-94ea5251902e
  • Korkontzelos, I., Mu, T., Restificar, A., & Ananiadou, S. (2011). Text mining for efficient search and assisted creation of clinical trials. In International Conference on Information and Knowledge Management, Proceedings|Int Conf Inf Knowledge Manage. (pp. 43-50). DOI: 10.1145/2064696.2064706. Publication link: 24e7831c-1e3a-4341-a170-4059299c9f93
  • Kolluru, B., Nakjang, S., Hirt, R. P., Wipat, A., & Ananiadou, S. (2011). Automatic extraction of microorganisms and their habitats from free text using text mining workflows.Journal of integrative bioinformatics, 8(2), 184. . Publication link: 26460ed3-d0c0-49e9-a851-a01c2df405d1
  • Soldatova, L. N., Kolluru, B., King, R. D., Qi, D., & Ananiadou, S. (2011). An ontology-based disambiguation of terms. In Proceedings of the Workshop on Mining the Pharmacogenomics Literature, Pacific Symopsium on Biocomputing.. Publication link: 20a441ad-c79b-448f-9c33-a83bb4077ab2
  • Thompson, P., Kano, Y., McNaught, J., Pettifer, S., Attwood, T., Keane, J., & Ananiadou, S. (2011). Promoting Interoperability of Resources in META-SHARE. In C. N, I. T, P. S, & S. V (Eds.), IJCNLP 2011 Proceedings of the Workshop on Language Resources,Technology and Services in the Sharing Paradigm. (pp. 50-58). Asian Federation of Natural Language Processing. . Publication link: 1fd6fc11-3f33-43e2-8695-2aab079e467f
  • Wang, X., McKendrick, I., Barrett, I., Dix, I., French, T., Tsujii, J., & Ananiadou, S. (2011). Automatic Extraction of Angiogenesis Bio-Process from Text. Bioinformatics. . Publication link: 113d104a-58a0-426b-a01c-dff9ee988a64
  • Tsuruoka, Y., Miwa, M., Hamamoto, K., Tsujii, J., & Ananiadou, S. (2011). Discovering and visualizing indirect associations between biomedical concepts. Bioinformatics, 27(13), 111-119. [btr214]. DOI: 10.1093/bioinformatics/btr214. Publication link: 0912070f-0ced-4733-8075-7e14447fa76b
  • Ananiadou, S., Thompson, P., Kano, Y., McNaught, J., Attwood, T., Day, P. J. R., ... Pettifer, S. (2011). Towards Interoperability of European Language Resources. Ariadne, 67. . Publication link: 3defeb41-695d-44b8-8044-5654c807c6e5
  • Kano, Y., Miwa, M., Cohen, K. B., Hunter, L. E., Ananiadou, S., & Tsujii, J. (2011). U-Compare: A modular NLP workflow construction and evaluation system. IBM Journal of Research and Development, 55(3). DOI: 10.1147/JRD.2011.2105691. Publication link: 3fac9ed4-95d5-446e-8dad-92ad164a9a6b
  • Nobata, C., Dobson, P. D., Iqbal, S. A., Mendes, P., Tsujii, J., Kell, D. B., & Ananiadou, S. (2011). Mining metabolites: Extracting the yeast metabolome from the literature. Metabolomics, 7(1), 94-101. DOI: 10.1007/s11306-010-0251-6. Publication link: 4c0af9ba-5794-461b-a55a-c00bf439892b
  • Ananiadou, S., Thompson, P., Kano, Y., McNaught, J., Attwood, T. K., Day, P. J. R., ... Pettifer, S. (2011). Towards Interoperability of European Language Resources. Ariadne, 67. . Publication link: 2fc4e197-f049-449e-9ba3-8e07c5dfcba1

2010

  • Wang, X., Rak, R., Restificar, A., Nobata, C., Rupp, C. J., Batista-Navarro, R. T., ... Ananiadou, S. (2010). NaCTeM Systems for BioCreative III PPI Tasks. In Proceedings of the BioCreative III Workshop. (pp. 142-147). Publication link: ee085f53-f48a-49e0-a6e8-73e48197d597
  • Mu, T., & Ananiadou, S. (2010). Proximity-based graph embeddings for multi-label classification. In KDIR 2010 - Proceedings of the International Conference on Knowledge Discovery and Information Retrieval|KDIR - Proc. Int. Conf. Knowl. Discov. Inf. Retr.. (pp. 74-84). Publication link: df0f420b-f95f-47f8-bf0a-92d41a2e3b33
  • Ananiadou, S., Pyysalo, S., Tsujii, J., & Kell, D. B. (2010). Event extraction for systems biology by text mining the literature. Trends in Biotechnology, 28(7), 381-390. DOI: 10.1016/j.tibtech.2010.04.005. Publication link: e13e6cc1-8f55-4bbb-bbbb-88953d8c05c4
  • Ananiadou, S., Kano, Y., Dorado, R., McCrochon, L., & Tsujii, J. (2010). U-Compare: An integrated language resource evaluation platform including a comprehensive UIMA resource library. In host publication. (pp. 428-434). Publication link: ba19f411-ab27-4852-95c8-e95119d719f9
  • Ananiadou, S., McNaught, J., Thomas, J., & Oliver, S. (2010). Evaluating a text mining based educational search portal. In Proceedings of the Seventh International Conference on Language Resources and Evaluation (LREC2010). (pp. 3344-3350). Paris: European Language Resources Association. . Publication link: c0a62f05-5dad-4fa9-a351-28fa4649a63a
  • Ananiadou, S., Nawaz, R., & Thompson, P. (2010). Evaluating a meta-knowledge annotation scheme for bio-events. In host publication. (pp. 69-77). Publication link: bd03317a-6fbb-4124-bde0-0b9ed06c71e3
  • Sasaki, Y., McNaught, J., & Ananiadou, S. (2010). The value of an in-domain lexicon in genomics QA. Journal of Bioinformatics and Computational Biology, 8(1), 147-161. DOI: 10.1142/S0219720010004513. Publication link: 1f2e81a0-b85c-454f-af67-5cc5d62e0a3f
  • Ananiadou, S., & Wang, X. (2010). A task oriented extension of the Chinese MeSH Concepts Hierarchy. In host publication. (pp. 23-30). Publication link: 09c88411-10df-44cb-b33e-b7708b8856e0
  • Nawaz, R., Thompson, P., McNaught, J., & Ananiadou, S. (2010). Meta-knowledge annotation of bio-events. In Proceedings of the Seventh International Conference on Language Resources and Evaluation (LREC2010). (pp. 2498-2505). Paris: European Language Resources Association. . Publication link: 111f9cdb-d727-4a00-a733-2b08198f8594
  • Kemper, B., Matsuzaki, T., Matsuoka, Y., Tsuruoka, Y., Kitano, H., Ananiadou, S., & Tsujii, J. (2010). PathText: A text mining integrator for biological pathway visualizations. Bioinformatics, 26(12), 374-381. [btq221]. DOI: 10.1093/bioinformatics/btq221. Publication link: 0ef7f56e-d0ad-49e3-8e03-250e5ca01813
  • Mu, T., Wang, X., Tsujii, J., & Ananiadou, S. (2010). Imbalanced classification using dictionary-based prototypes and hierarchical decision rules for entity sense disambiguation. In Coling 2010 - 23rd International Conference on Computational Linguistics, Proceedings of the Conference|Coling - Int. Conf. Comput. Linguist., Proc. Conf.. (Vol. 2, pp. 851-859). ACL. . Publication link: 4161c716-aedf-4ba3-b4b0-f7a3dcf68f9f
  • Ananiadou, S., Nawaz, R., & Thompson, P. (2010). Event Interpretation: A Step towards Event-Centred Text Minin. In host publication. (pp. 103-107). Publication link: 4d7a9f0f-90fa-4a2a-ad68-9e3414d57354
  • Black, W., Rupp, C., Nobata, C., McNaught, J., Tsujii, J., & Ananiadou, S. (2010). High-Precision Semantic Search by Generating and Testing Questions. In Proceedings of the UK e-Science All Hands Meeting. (pp. 3pp). Publication link: 4c8ee5f9-503e-47d3-b46b-5581d885e2f3
  • Ananiadou, S., Pyysalo, S., Ohta, T., Cho, H-C., Sullivan, D., Mao, C., ... Tsujii, J. (2010). Towards Event Extraction from Full Texts on Infectious Diseases. In host publication. (pp. 132-140). Publication link: 2a16dc6e-d120-4f2d-a6bb-32950ce10d44
  • Ananiadou, S., Thompson, P., & Nawaz, R. (2010). Improving search through Event-based Biomedical Text Mining. 1st Automated Motif Discovery in Cultural Heritage and Scientific Communication Texts (AMICUS) workshop, Vienna, .. Publication link: 2c64dea1-335d-47b3-a91b-9e16a3a6c6b3
  • Wang, X., Tsujii, J., & Ananiadou, S. (2010). Disambiguating the species of biomedical named entities using natural language parsers. Bioinformatics, 26(5), 661-667. [btq002]. DOI: 10.1093/bioinformatics/btq002. Publication link: 50d1efb5-d8f6-4b91-a71c-90a21e04a449
  • Ananiadou, S., Thompson, P., Thomas, J., Mu, T., Oliver, S., Rickinson, M., ... McNaught, J. (2010). Supporting the education evidence portal via text mining. Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, 368(1925), 3829-3844. DOI: 10.1098/rsta.2010.0152. Publication link: 833b310c-a637-4957-a28d-a5bfbbfcae1a
  • Rupp, C., Thompson, P., Black, W., McNaught, J., & Ananiadou, S. (2010). A Specialised Verb Lexicon as the Basis of Fact Extraction in the Biomedical Domain. In Proceedings of interdisciplinary workshop on verbs: the identification and representation of verb features (Verb 2010). (pp. 6pp). Pisa. . Publication link: 755c5d11-8793-4408-9886-3b204a358a85
  • Okazaki, N., Ananiadou, S., & Tsujii, J. (2010). Building a high-quality sense inventory for improved abbreviation disambiguation. Bioinformatics, 26(9), 1246-1253. [btq129]. DOI: 10.1093/bioinformatics/btq129. Publication link: 98d0669e-2673-4a98-8104-0c53806bd18d

2009

  • Lyte, V., Jones, S., Ananiadou, S., & Kerr, L. (2009). UK Institutional Repository Search: Innovation and Discovery. Ariadne, (61). . Publication link: f944e196-e058-46ba-ac5c-cbde0da61590
  • Sasaki, Y., Thompson, P., McNaught, J., & Ananiadou, S. (2009). Three BioNLP Tools Powered by the BioLexicon. In Proceeedings of EACL 2009 : Demonstration Session. (pp. 61-64). Publication link: f1842e1c-3d51-4925-97c0-c19574b18500
  • Ananiadou, S., Rea, B., Okazaki, N., Procter, R., & Thomas, J. (2009). Supporting systematic reviews using text mining. Social Science Computer Review, 27(4), 509-523. DOI: 10.1177/0894439309332293. Publication link: c84fa55b-0e31-4933-9bab-fb303e59c5fc
  • Tekiner, F., Tsuruoka, Y., Tsujii, J., & Ananiadou, S. (2009). Highly scalable text mining - Parallel tagging application. In ICSCCW 2009 - 5th International Conference on Soft Computing, Computing with Words and Perceptions in System Analysis, Decision and Control|ICSCCW - Int. Conf. Soft Comput., Comput. Words Percept. Syst. Anal., Decis. Control. DOI: 10.1109/ICSCCW.2009.5379432. Publication link: ca929ed7-1e01-47e3-8135-3e7d605ce22b
  • Kano, Y., Baumgartner, W. A., McCrohon, L., Ananiadou, S., Cohen, K. B., Hunter, L., & Tsujii, J. (2009). U-Compare: Share and compare text mining tools with UIMA. Bioinformatics, 25(15), 1997-1998. DOI: 10.1093/bioinformatics/btp289. Publication link: ced41bac-7839-45a6-a860-34f8af02eeac
  • Piao, S., Rea, B., McNaught, J., & Ananiadou, S. (2009). Improving full text search with text mining tools. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)|Lect. Notes Comput. Sci.. (Vol. 5723, pp. 301-302). DOI: 10.1007/978-3-642-12550-8_29. Publication link: cf06ab8d-b1a0-4de1-8fe6-5b45c0987278
  • Barrón-Cedeño, A., Sierra, G., Drouin, P., & Ananiadou, S. (2009). An improved automatic term recognition method for spanish. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)|Lect. Notes Comput. Sci.. (Vol. 5449, pp. 125-136). Proceedings of the 10th International Conference on Intelligent Text Processing and Computational Linguistics (CICLing 2009): Springer Verlag. DOI: 10.1007/978-3-642-00382-0_10. Publication link: ea2ef5da-be16-4dc7-9c57-8ffb476dfe41
  • Ananiadou, S., Sasaki, Y., & McNaught, J. (2009). The Value of an In-Domain Lexicon in Genomics QA. In host publication. (pp. 47-55). Publication link: 69061eaa-6ff3-44b0-9131-2080e91dc7df
  • Matsuoka, Y., Ghosh, S., Kikuchi, N., Sætre, R., Kemper, B., Okazaki, N., ... Kitano, H. (2009). Community Platform for Pathway Model Building. In 10th International Conference on Systems Biology. (pp. 139-140). Publication link: 77003d05-43df-4c10-ad94-c225b33957cd
  • Nobata, C., Sasaki, Y., Okazaki, N., Rupp, C. J., Tsujii, J., & Ananiadou, S. (2009). Semantic Search on Digital Document Repositories based on Text Mining Results. In International Conferences on Digital Libraries and the Semantic Web 2009 (ICSD2009). (pp. 34-48). Publication link: 74687ed7-ec1f-4aa5-b17b-ff62aa997c99
  • Ananiadou, S. (2009). Text mining for biomedicine. In Information Retrieval in Biomedicine: Natural Language Processing for Knowledge Integration|Info. Retr. in Biomed.: Nat. Lang. Proc. for Knowledge Intgn.. (pp. 1-9). IGI Global. DOI: 10.4018/978-1-60566-274-9.ch001. Publication link: 5475d3f5-926b-4e9c-8861-08b2c26737f9
  • Rea, B., Weissenbacher, D., Sasaki, Y., Thomas, J., & Ananiadou, S. (2009). ASSIST: Education Evidence Portal. In Proceedings of the UK e-Science All Hands Meeting 2009.. Publication link: 5c68597b-8668-4f20-98fc-6bf7629ec0b8
  • Tsuruoka, Y., Tsujii, J., & Ananiadou, S. (2009). Fast full parsing by linear-chain conditional random fields. In EACL 2009 - 12th Conference of the European Chapter of the Association for Computational Linguistics, Proceedings|EACL - Conf. Eur. Chapter Assoc. Comput. Linguist., Proc.. (pp. 790-798). Publication link: 8796c4a1-ebce-4e14-988c-02286248ea5a
  • Thompson, P., Iqbal, S. A., McNaught, J., & Ananiadou, S. (2009). Construction of an annotated corpus to support biomedical information extraction. BMC Bioinformatics, 10, [349]. DOI: 10.1186/1471-2105-10-349. Publication link: 7fbe472f-ae7d-48ea-b90d-84e21b4b41d9
  • Piao, S., Tsuruoka, Y., & Ananiadou, S. (2009). Sentiment analysis with knowledge resource and NLP tools. International Journal of Interdisciplinary Social Sciences, 4(5), 17-28. . Publication link: 8e72cdf5-f64b-457c-bb7e-5eccf2c8b6ae
  • Ananiadou, S., Weissenbacher, D., Rea, B., Pieri, E., Lin, Y., Vis, F., ... Halfpenny, P. (2009). Supporting Frame Analysis using Text Mining. In Proceedings of the 5th International Conference on e-Social Science.. Publication link: 26dd5fc9-5ab0-4392-9a36-704f739f0835
  • Wang, X., Tsujii, J., & Ananiadou, S. (2009). Classifying relations for biomedical named entity disambiguation. In EMNLP 2009 - Proceedings of the 2009 Conference on Empirical Methods in Natural Language Processing: A Meeting of SIGDAT, a Special Interest Group of ACL, Held in Conjunction with ACL-IJCNLP 2009|EMNLP - Proc. Conf. Empir. Methods Nat. Lang. Process.: Meet. SIGDAT, Spec. Interest Group ACL, Held Conjunction ACL-IJCNLP. (pp. 1513-1522). Publication link: 134d55cf-e519-4377-b749-07496bd1604a
  • Sasaki, Y., Thompson, P., McNaught, J., & Ananiadou, S. (2009). Biological event recognition with textual induction. In Proceedings of the 3rd International Symposium on Languages in Biology and Medicine (LBM-2009). (pp. 91-96). Publication link: 33aab968-bdc2-4736-989a-e674790fab34
  • Venturi, G., Montemagni, S., Marchi, S., Sasaki, Y., Thompson, P., McNaught, J., & Ananiadou, S. (2009). Bootstrapping a verb lexicon for biomedical information extraction. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)|Lect. Notes Comput. Sci.. (Vol. 5449, pp. 137-148). Heidelberg: Springer Verlag. DOI: 10.1007/978-3-642-00382-0_11. Publication link: 2f5107ee-df3e-4c23-b7e8-21ae939f9c9d
  • Kano, Y., McCrochon, L., Ananiadou, S., & Tsujii, J. (2009). Integrated NLP Evaluation System for Pluggable Evaluation Metrics with Extensive Interoperable Toolkit. In Proceedings of the NAACL HLT Workshop on Software Engineering, Testing, and Quality Assurance for Natural Language Processing. (pp. 22-30). Publication link: 3c2c7b56-40bb-4656-8686-b49638de6bed
  • Sasaki, Y., Rea, B., & Ananiadou, S. (2009). Clinical text classification under the open and closed topic assumptions. International Journal of Data Mining and Bioinformatics, 3(3), 299-313. DOI: 10.1504/IJDMB.2009.026703. Publication link: 414cb7b0-9ef6-4378-ae83-1957f0fb2dfc

2008

  • Kano, Y., Nguyen, N., SÆtre, R., Yoshida, K., Miyao, Y., Tsuruoka, Y., ... Tsujii, J. (2008). Filling the gaps between tools and users: A tool comparator, using protein-protein interaction as an example. In Pacific Symposium on Biocomputing 2008, PSB 2008|Pac. Symp. Biocomputing, PSB. (pp. 616-627). Publication link: 6f48e3f8-0872-4c65-a649-fef7d8da6f27
  • Sasaki, Y., Thompson, P., Cotter, P., McNaught, J., & Ananiadou, S. (2008). Event frame extraction based on a gene regulation corpus. 761-768. Paper presented at 22nd International Conference on Computational Linguistics, Coling 2008, Manchester, .. Publication link: 70c53b33-a3e6-4117-adb3-0f3e8fb124e0
  • Sasaki, Y., Tsuruoka, Y., McNaught, J., & Ananiadou, S. (2008). How to make the most of NE dictionaries in statistical NER. BMC Bioinformatics, 9(supplement 11), [S5]. DOI: 10.1186/1471-2105-9-S11-S5. Publication link: 73853d1b-b031-4a70-b7f2-21638f3122fb
  • Tsuruoka, Y., McNaught, J., & Ananiadou, S. (2008). Normalizing biomedical terms by minimizing ambiguity and variability. BMC Bioinformatics, 9(3), [S2]. DOI: 10.1186/1471-2105-9-S3-S2. Publication link: 54a10e04-30d1-4db5-bb77-88f9899f66c8
  • Rebholz-Schuhmann, D., Pezik, P., Lee, V., Kim, J-J., del Gratta, R., Sasaki, Y., ... Ananiadou, S. (2008). BioLexicon: Towards a Reference Terminological Resource in the Biomedical Domain. In Proceedings of the of the 16th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB-2008).. Publication link: 5c971568-c602-4bd1-890f-5906fb138124
  • Thompson, P., Cotter, P., McNaught, J., Ananiadou, S., Montemagni, S., Trabucco, A., & Venturi, G. (2008). Building a Bio-Event Annotated Corpus for the Acquisition of Semantic Frames from Biomedical Corpora. In Proceedings of the Sixth International Conference on Language Resources and Evaluation (LREC 2008). (pp. 2159-2166). Publication link: 31279678-6483-4bd3-8f19-92520bc7b6eb
  • Okazaki, N., Tsuruoka, Y., Ananiadou, S., & Tsujii, J. (2008). A discriminative candidate generator for string transformations. In EMNLP 2008 - 2008 Conference on Empirical Methods in Natural Language Processing, Proceedings of the Conference: A Meeting of SIGDAT, a Special Interest Group of the ACL|EMNLP - Conf. Empir. Methods Nat. Lang. Process., Proc. Conf.: Meet. SIGDAT, Spec. Interest Group ACL. (pp. 447-456). Publication link: 34ff11d5-325e-4779-8edd-7308db6348d7
  • Sætre, R., Kemper, B., Oda, K., Okazaki, N., Matsuoka, Y., Kikuchi, N., ... Tsujii, J. (2008). Connecting Text Mining and Pathways using the PathText Resource. In Proceedings of the Sixth International Conference on Language Resources and Evaluation (LREC 2008). (pp. 1736-1740). Publication link: 34f87ca2-41e0-4d3a-a324-4f1f50a39c28
  • Piao, S., McNaught, J., & Ananiadou, S. (2008). Clustering Related Terms with Definitions. In Proceedings of the Sixth International Conference on Language Resources and Evaluation (LREC 2008). (pp. 2013-2019). Publication link: 489f9211-0249-4ff1-829d-e95152ed24de
  • Meziane, F., Athanasakis, N., & Ananiadou, S. (2008). Generating Natural Language specifications from UML class diagrams. Requirements Engineering, 13(1), 1-18. DOI: 10.1007/s00766-007-0054-0. Publication link: 3cfe77a9-f51d-41fb-b485-e488c7078513
  • Sætre, R., Kemper, B., Oda, K., Okazaki, N., Matsuoka, Y., Kikuchi, N., ... Tsujii, J. (2008). PathText: Text Mining Tools Integrated with Biological Pathway. In host publication.. Publication link: 1716b0f0-c6c9-48c5-95e8-68c1190a222a
  • Splendiani, A., Piao, S., Sasaki, Y., Ananiadou, S., McNaught, J., & Burgun, A. (2008). Compositional Enrichment of Bio-Ontologies. In Proceedings of 11th Annual Bio-Ontologies Meeting, at the Intelligent Systems for Molecular Biology 2008 Conference (ISMB-2008).. Publication link: b3453455-66e0-4836-97f1-57ad3743a5ca
  • Sasaki, Y., Thompson, P., Cotter, P., McNaught, J., & Ananiadou, S. (2008). Event frame extraction based on a gene regulation corpus. In Coling 2008 - 22nd International Conference on Computational Linguistics, Proceedings of the Conference|Coling - Int. Conf. Comput. Linguist., Proc. Conf.. (Vol. 1, pp. 761-768). Publication link: bc1538ab-c503-41f8-8332-0fc022f509a3
  • Tsuruoka, Y., Tsujii, J., & Ananiadou, S. (2008). FACTA: A text search engine for finding associated biomedical concepts. Bioinformatics, 24(21), 2559-2560. DOI: 10.1093/bioinformatics/btn469. Publication link: acf90ade-6c5a-4720-8ac1-25f3d307cd10
  • Tsuruoka, Y., Tsujii, J. I., & Ananiadou, S. (2008). Accelerating the annotation of sparse named entities by dynamic sentence selection. In BMC Bioinformatics|BMC Bioinform.. (Vol. 9). DOI: 10.1186/1471-2105-9-S11-S8. Publication link: caf93649-ec0b-4474-887f-3005b40f4864
  • Kano, Y., Nguyen, N., Sætre, R., Fukamachi, K., Yoshida, K., Miyao, Y., ... Tsujii, J. (2008). Sharable type system design for tool inter-operability and combinatorial comparison. In Proceedings of the First International Conference on Global Interoperability for Language Resources (ICGL). (pp. 122-129). Publication link: e67ff010-207c-421f-ba85-e87c894f661e
  • Kano, Y., Nguyen, N., Sætre, R., Yoshida, K., Fukamachi, K., Miyao, Y., ... Tsujii, J. (2008). Towards Data And Goal Oriented Analysis: Tool Inter-Operability And Combinatorial Comparison. In Proceedings of the 3rd International Joint Conference on Natural Language Processing (IJCNLP-2008). (pp. 859-864). Publication link: de8a38ed-b4c5-485a-945e-cd24b16e03d7
  • Hirohata, K., Okazaki, N., Ananiadou, S., & Ishizuka, M. (2008). Identifying Sections in Scientific Abstracts using Conditional Random Fields. In Proceedings of the 3rd International Joint Conference on Natural Language Processing (IJCNLP 2008). (pp. 381-388). Publication link: ebf03d48-4bed-45a5-ab15-d277ff5729d1
  • Thompson, P., Venturi, G., McNaught, J., Montemagni, S., & Ananiadou, S. (2008). Categorising Modality in Biomedical Texts. In Proceedings of the LREC 2008 Workshop on Building and Evaluating Resources for Biomedical Text Mining.. (pp. 27-34). Publication link: edf5928a-d14d-4776-9edb-8d35bfa66804

2007

  • Sasaki, Y., Rea, B., & Ananiadou, S. (2007). Multi-topic aspects in clinical text classification. In Proceedings - 2007 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2007|Proc. IEEE Int. Conf. Bioinformatics Biomed., BIBM. (pp. 62-67). DOI: 10.1109/BIBM.2007.23. Publication link: ef1c9f58-8a3e-4c34-b408-d58221d130a9
  • Piao, S., Buyko, E., Tsuruoka, Y., Tomanek, K., Kim, J-D., McNaught, J., ... Ananiadou, S. (2007). BOOTStrep Annotation Scheme: Encoding Information for Text Mining. In Proceedings of the 4th Corpus Linguistics Conference (CL2007).. Publication link: e80eeb44-86dc-44e8-ab4f-dc7fd9213d79
  • Ananiadou, S. (2007). The National Centre for Text Mining: a Vision for the Future. Ariadne, 53. . Publication link: d2c3b1ac-e862-4745-879a-24aa007ec070
  • Tsuruoka, Y., McNaught, J., Tsujii, J., & Ananiadou, S. (2007). Learning string similarity measures for gene/protein name dictionary look-up using logistic regression. Bioinformatics, 23(20), 2768-2774. DOI: 10.1093/bioinformatics/btm393. Publication link: d29b3446-cc78-4549-aae7-4437e04b8ae1
  • Piao, S., Ananiadou, S., Tsuruoka, Y., Sasaki, Y., & McNaught, J. (2007). Mining Opinion Polarity Relations of Citations. In Proceedings of the 7th International Workshop on Computational Semantics. (pp. 366-371). Publication link: d37d91f7-1069-464b-a439-2bb7aff21f45
  • Rea, B., & Ananiadou, S. (2007). Text Mining Services to Support E-Research. In UK e-Science All Hands Meeting.. Publication link: b2fe9ab4-a0c2-48e6-8546-9004cb8a8222
  • Hahn, U., Buyko, E., Tomanek, K., Piao, S., McNaught, J., Tsuruoka, Y., & Ananiadou, S. (2007). An annotation type system for a data-driven NLP pipeline. In ACL 2007: The LAW - Proceedings of The Linguistic Annotation Workshop|ACL - LAW, Proc. Linguist. Annot. Workshop. (pp. 33-40). Publication link: ae9cb43a-2109-4fe4-8bb7-c19643a6303b
  • Frantzi, K., & Ananiadou, S. (2007). C-value for Authorship Identification. In Proceedings of the 8th Conference on Forensic Linguistics, Language and Law.. Publication link: 92972eb8-f43e-4ebd-a01f-23b614eae7d4
  • Ananiadou, S., Cotter, P., Nobata, C., Okazaki, N., Rea, B., Sasaki, Y., ... Tsujii, J. (2007). SemText: A semantically enriched information retrieval system for biology. In Proceedings of the 8th International Conference on Systems Biology (ICSB 2007).. Publication link: 946deaec-a56b-475e-9f65-041e221ff366
  • Ananiadou, S., Procter, R., Rea, B., Sasaki, Y., & Thomas, J. (2007). Supporting Systematic Reviews using Text Mining. In Proceedings of the 3rd International Conference on e-Social Science.. Publication link: 7e6e5ca8-2a3e-41cb-911e-364ceb497880
  • Piao, S., Ananiadou, S., & McNaught, J. (2007). Integrating Annotation Tools into UIMA for Interoperability. In Proceedings of the UK e-Science AHM Conference 2007. (pp. 575-582). Publication link: 8425034d-38dc-4f6f-9c74-bdc85bca9c4f

2006

  • Mima, H., Ananiadou, S., & Matsushima, K. (2006). Terminology-based knowledge mining for new knowledge discovery. ACM Transactions on Asian Language Information Processing, 5(1), 74-88. DOI: 10.1145/1131348.1131354. Publication link: 3f2fd1a3-4717-4d79-812e-52d7ac14c5af
  • Kim, J-D., Ananiadou, S., & Tsujii, J. (2006). Ontology based Semantic Annotation for Knowledge Extraction. In 2nd International Digital Curation Conference.. Publication link: 34b1f20a-08e2-4e36-8193-f7f67cd26b21
  • Nenadić, G., & Ananiadou, S. (2006). Mining semantically related terms from biomedical literature. ACM Transactions on Asian Language Information Processing, 5(1), 22-43. DOI: 10.1145/1131348.1131351. Publication link: 17991031-3088-428e-be76-1f86353119bd
  • Ananiadou, S., & McNaught, J. (2006). Introduction to Text Mining for Biology and Biomedicine. In S. Ananiadou, & J. McNaught (Eds.), Text Mining for Biology and Biomedicine. (pp. 1-12). Norwood, MA.: Artech House. . Publication link: 1b221704-d381-4738-a252-28c69b315c78
  • Ananiadou, S., & McNaught, J. (Eds.) (2006). Text Mining for Biology And Biomedicine. (Artech House bioinformatics). Boston: Artech House, Inc.. Publication link: 9a1b2454-bdac-40bf-9708-d029e1f7baca
  • Okazaki, N., & Ananiadou, S. (2006). Clustering Acronyms in Biomedical Text for Disambiguation. In Proceedings of Fifth International conference on Language Resources and Evaluation (LREC 2006). (pp. 959-962). Publication link: 77116890-e715-4d73-b375-18149a7bc8d0
  • Ananiadou, S., Kell, D. B., & Tsujii, J. I. (2006). Text mining and its potential applications in systems biology. Trends in Biotechnology, 24(12), 571-579. DOI: 10.1016/j.tibtech.2006.10.002. Publication link: 5cf23858-0678-40a0-8661-1aae5321cfbe | PubMed:17045684
  • Ananiadou, S., & Fluck, J. (2006). Proceedings of the Second International Symposium on Semantic Mining in Biomedicine (SMBM). In host publication.. Publication link: 67801aa8-ec59-4f90-bc9f-0cdca185f198
  • Okazaki, N., & Ananiadou, S. (2006). Building an abbreviation dictionary using a term recognition approach. Bioinformatics, 22(24), 3089-3095. DOI: 10.1093/bioinformatics/btl534. Publication link: bdf52e20-2e52-48d6-b036-41640bb68c72
  • Ananiadou, S., & McNaught, J. (Eds.) (2006). Introduction to Text Mining in Biology. In Text Mining for Biology and Biomedicine. (pp. 1-12). Publication link: b7db80fa-0830-4348-a4cf-4812dbe0b2ae

2005

  • Ananiadou, S., Chruszcz, J., Keane, J., McNaught, J., & Watry, P. (2005). The National Centre for Text Mining: Aims and Objectives. Ariadne, 42. . Publication link: 7ab70318-5c79-43bd-b17c-8769450971a4
  • Spasić, I., & Ananiadou, S. (2005). A flexible measure of contextual similarity for biomedical terms. In Proceedings of the Pacific Symposium on Biocomputing 2005, PSB 2005|Proc. Pac. Symp. Biocomputing, PSB. (pp. 197-208). Publication link: 7d64f5c3-b4ec-4c09-85b1-fea2b1698283
  • Spasic, I., Ananiadou, S., McNaught, J., & Kumar, A. (2005). Text mining and ontologies in biomedicine: Making sense of raw text. Briefings in Bioinformatics, 6(3), 239-251. DOI: 10.1093/bib/6.3.239. Publication link: 862f26bf-2f74-42ab-96d9-1e84cb353d89
  • Tsuruoka, Y., Tateishi, Y., Kim, J. D., Ohta, T., McNaught, J., Ananiadou, S., & Tsujii, J. (2005). Developing a robust part-of-speech tagger for biomedical text. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)|Lect. Notes Comput. Sci.. (Vol. 3746, pp. 382-392). (Advances in Informatics - 10th Panhellenic Conference on Informatics). DOI: 10.1007/11573036_36. Publication link: 8a2d513f-d32a-46e4-8e6c-2496fdd0ea6b
  • Nenadić, G., Spasić, I., Ananiadou, S., Su, K-Y. (Ed.), Tsujii, J. (Ed.), Lee, J-H. (Ed.), & Kwong, O. Y. (Ed.) (2005). Mining Biomedical Abstracts: What's in a Term? In Natural Language Processing - IJCNLP 2004. (Vol. 3248). (Natural Language Processing - IJCNLP 2004).. Publication link: 15688a4b-80cf-4f94-97bf-3e2d6570e853
  • Tsujii, J., & Ananiadou, S. (2005). Thesaurus or logical ontology, which one do we need for text mining?Language Resources and Evaluation, 39(1), 77-90. DOI: 10.1007/s10579-005-2697-0. Publication link: b09c30bf-760e-4611-bdb4-b58a1777b0ba
  • Tsuruoka, Y., Ananiadou, S., & Tsujii, J. (2005). A Machine Learning Approach To Acronym Generation. In Proceedings of the Workshop On Linking Biological Literature Ontologies And Databases. (pp. 25-31). Publication link: bdb1c0a7-ecac-4276-b012-fb9c980d2dc6

2004

  • Spasić, I., Nenadić, G., & Ananiadou, S. (2004). Learning to classify biomedical terms through literature mining and genetic algorithms. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)|Lect. Notes Comput. Sci.. (Vol. 3177, pp. 345-351). (Lecture Notes in Computer Science). Springer Verlag. . Publication link: afeae63a-6ed4-4440-8cdd-be5fc76d146d
  • Nenadić, G., Spasić, I., & Ananiadou, S. (2004). Automatic Discovery of Term Similarities Using Pattern Mining. International Journal of Terminology, 10(1), 55-80. DOI: 10.3115/1118771.1118779. Publication link: df7c6b15-df8c-48f1-80c0-c9066e4d57f9
  • Nenadic, G., Ananiadou, S., & McNaught, J. (2004). Enhancing automatic term recognition through recognition of variation. In Proceedings of COLING 2004. (pp. 604-610). Publication link: 06df52f4-2e70-4cb1-8873-a5d778debea4
  • Ananiadou, S., Friedman, C., & Tsujii, J. I. (2004). Introduction: Named entity recognition in biomedicine. Journal of Biomedical Informatics, 37(6), 393-395. DOI: 10.1016/j.jbi.2004.08.011. Publication link: 0161402c-5a60-4424-bc25-374167706696
  • Spasić, I., & Ananiadou, S. (2004). Using automatically learnt verb selectional preferences for classification of biomedical terms. Journal of Biomedical Informatics, 37(6), 483-497. DOI: 10.1016/j.jbi.2004.08.002. Publication link: 576c4d31-609f-4ba6-9e1a-0bb81a0040c2

2003

  • Nenadic, G., Rice, S., Spasic, I., & Ananiadou, S. S. (2003). Selecting Features for Text- based Classification: from Documents to Terms. In Proc. ACL Workshop on NLP in Biomedicine. (pp. 121-128). Publication link: 52c23929-237b-49e1-b1ff-ce8aef2f168f
  • Spasic, I., Nenadic, G., & Ananiadou, S. (2003). Using Domain-Specific Verbs for Term Classification. In Proc. ACL Workshop on NLP in Biomedicine. (pp. 17-24). Publication link: 64df2c8b-a47f-4e2e-802c-18f931e82da2
  • Manios, K., Nenadic, G., Spasic, I., & Ananiadou, S. (2003). An Integrated Term-Based Corpus Query System. In {EACL} 2003, 10th Conference of the European Chapter of the Association for Computational Linguistics, April 12-17, 2003, Agro Hotel, Budapest, Hungary. (pp. 243-250). Publication link: 60ea9d62-0c18-4c94-ae82-25bf7e784b24
  • Nenadic, G., Spasic, I., & Ananiadou, S. (2003). Terminology-driven Mining of Biomedical Literature. Bioinformatics, 19(8), 938-943. DOI: 10.1093/bioinformatics/btg105. Publication link: 4bad6784-4d3d-471b-9ff6-c980e22d117e
  • Nenadic, G., Spasic, I., & Ananiadou, S. (2003). Morpho-Syntactic Clues for Terminological Processing in Serbian. In Proc. EACL Workshop on Morphological Processing of Slavic Languages. (pp. 79-86). Publication link: 32242fe5-9539-4cc5-8bce-a2558f8a874d
  • Nenadic, G., Spasic, I., & Ananiadou, S. (2003). Terminology-driven mining of biomedical literature. In Proceedings of the 2003 ACM Symposium on Applied Computing (SAC), March 9-12, 2003, Melbourne, FL, USA. (pp. 83-87). ACM. . Publication link: 2a1bd5a3-08a0-4a00-8dcb-f0618d56b8e2
  • Nenadic, G., Spasic, I., Ananiadou, S., Kosta, P. (Ed.), Blaszczak, J. (Ed.), Frasek, J. (Ed.), ... Zygis, M. (Ed.) (2003). Reducing Lexical Ambiguity in Serbo-Croatian by Using Genetic Algorithms. In Investigations into Formal Slavic Linguistics. (Vol. 10, pp. 287-298). (Linguistik International). Frankfurt: Peter Lang. . Publication link: f51c9bc7-cc77-4b0c-8014-f1a07f3e219f

2002

  • Spasic, I., Nenadic, G., & Ananiadou, S. (2002). Tuning Context Features with Genetic Algorithms. In Proceedings of the Third International Conference on Language Resources and Evaluation, LREC 2002, May 29-31, 2002, Las Palmas, Canary Islands, Spain. (pp. 2048-2054). Publication link: 7ad79571-4b14-4cd6-a4d8-13a8de204ad8
  • Nenadic, G., Spasic, I., & Ananiadou, S. (2002). Automatic discovery of term similarities using pattern mining. In Proc. 2nd International Workshop on Computational Terminology. (pp. 1-7). Publication link: 5f3ee84d-2ff4-4117-8967-8641c87bc2db
  • Spasic, I., Nenadic, G., & Ananiadou, S. (2002). A Genetic Algorithm Approach to Unsupervised Learning of Context Features. In Proc. 5th National Colloquium for Computational Linguistics in the UK (CLUK). (pp. 12-19). Publication link: 77178e3f-c0b9-4387-9bc6-44a7a78b2d9a
  • Spasic, I., Nenadic, G., Manios, K., & Ananiadou, S. (2002). Supervised Learning of Term Similarities. In Intelligent Data Engineering and Automated Learning - IDEAL 2002, Third International Conference, Manchester, UK, August 12-14, Proceedings. (pp. 429-434). DOI: 10.1007/3-540-45675-9_64. Publication link: 35c9e428-0700-4b55-9429-9a9ff362d9b5
  • Nenadic, G., Spasic, I., & Ananiadou, S. (2002). Automatic Acronym Acquisition and Term Variation Management within Domain-Specific Texts. In Proceedings of the Third International Conference on Language Resources and Evaluation, LREC 2002, May 29-31, 2002, Las Palmas, Canary Islands, Spain. (pp. 2155-2162). Publication link: ce5e2d7e-4f3f-4b01-973a-22ffd2252dab
  • Nenadic, G., Mima, H., Spasic, I., Ananiadou, S., Tsujii, J., & Spasić, I. (2002). Terminology-driven literature mining and knowledge acquisition in biomedicine. I. J. Medical Informatics, 67(1-3), 33-48. DOI: 10.1016/S1386-5056(02)00055-2. Publication link: e0532068-5e87-4892-ab8c-991c2a03105c
  • Mima, H., Ananiadou, S., Nenadic, G., & Tsujii, J. (2002). XML tag information management system: A workbench for ontology-based knowledge acquisition and integration. In Proc. Human Language Technology Conference (HLT 2002). (pp. 286-292). Publication link: aabad934-d6c0-4977-a5a0-b906b1c346ae
  • Mima, H., Ananiadou, S., Nenadic, G., & Tsujii, J. (2002). An Integrated System for Ontology-based Knowledge Structuring and Discovery. In Proc. SOFG 2002 (Standards and Ontologies for Functional Genomics).. Publication link: a11cabaf-e7c3-4847-bbb1-9bbb8abaa4c8
  • Ananiadou, S., Nenadic, G., Schuhmann, D., & Spasic, I. (2002). Term based literature mining from biomedical texts. In Proc.Intelligent Systems for Molecular Biology (ISMB).. Publication link: b4258b58-a014-4ca1-b1d8-f63689d9e02d
  • Mima, H., Ananiadou, S., Nenadic, G., & Tsujii, J. (2002). A Methodology for Terminology-based Knowledge Acquisition and Integration. In 19th International Conference on Computational Linguistics, COLING 2002, Howard International House and Academia Sinica, Taipei, Taiwan, August 24 - September 1, 2002. (pp. 667-673). Publication link: b7e3a5b4-42d2-40e6-a179-2369da6b1b3e
  • Nenadic, G., Spasic, I., & Ananiadou, S. (2002). Reducing lexical ambiguity in Serbo-Croatian by using genetic algorithms. In Proc. 4th Eur. Conf. on Formal Description of Slavic Languages (FDSL- 4).. Publication link: f981fb82-773f-418c-a3a0-dbce31c6396f

2001

  • Maynard, D., Ananiadou, S., Bourigault, D. (Ed.), Jacquemin, C. (Ed.), & L???Homme, M-C. (Ed.) (2001). Term extraction using a similarity-based approach. In Recent Advances in Computational Terminology. (Vol. 2, pp. 261-279). (Natural Language Processing Series). Amsterdam: John Benjamins Publishing Company. . Publication link: d19fe6fd-0e71-495a-b43b-d89dfdbe5a0e
  • Mima, H., Ananiadou, S., & Nenadic, G. (2001). The ATRACT Workbench: Automatic Term Recognition and Clustering for Terms. In Text, Speech and Dialogue, 4th International Conference, TSD 2001, Zelezna Ruda, Czech Republic, September 11-13, 2001, Proceedings. (pp. 126-133). DOI: 10.1007/3-540-44805-5_16. Publication link: 85a371d7-9212-4182-ab24-673634d9510c
  • Ananiadou, S., Nenadic, G., & Mima, H. (2001). A terminology management workbench for Molecular Biology. In Proc. 19th ESF/Twente Workshop on Language Technology: Information Extraction in Molecular Biology. (pp. 7-12). Publication link: 7817581c-e6dd-439b-9204-566db62c617f
  • Ananiadou, S. . K. (2001). Term variation as an integrated part of automatic term recognition. In Proc. Recent Advances in NLP (RANLP-2001).. Publication link: 9a3be0c9-2b14-4055-940a-d21acf7cc09d

2000

  • Maynard, D., & Ananiadou, S. (2000). Terminological acquaintance: The importance of contextual information in terminology. In Proc. Int. Workshop on Computational Terminology for Medical and Biological Applications. (pp. 19-28). Publication link: 8279036b-b519-46b1-9ffa-3e6f259d10d5
  • Frantzi, K. T., Ananiadou, S., & Mima, H. (2000). Automatic recognition of multi-word terms: the C-value/NC-value method. International Journal on Digital Libraries , 3(2), 115-130. DOI: 10.1007/s007999900023. Publication link: 661e51a4-ae20-4865-abfb-077b5c0b5587
  • Maynard, D., & Ananiadou, S. (2000). TRUCKS: A model for automatic multi-word term recognition. Journal of Natural Language Processing, 8(1), 101-125. . Publication link: c8353cb4-1b75-4a8a-8e92-07cdd2ca522a
  • Mima, H., & Ananiadou, S. (2000). An application and evaluation of the C/NC-value approach for the automatic term recognition of multi-word units in Japanese. International Journal of Terminology, 6(2), 175-194. . Publication link: d0c4896a-6e71-4b39-9eee-4694801ac86e
  • Maynard, D., & Ananiadou, S. (2000). Creating and Using Domain-specific Ontologies for Terminological Applications. In Proceedings of the Second International Conference on Language Resources and Evaluation, LREC 2000, 31 May - June 2, 2000, Athens, Greece. (pp. 869-873). Publication link: a7dd2afa-cd4c-4b8d-88c5-6e66297b0794
  • Ananiadou, S., Albert, S., & Schuhmann, D. (2000). Evaluation of automatic term recognition of nuclear receptors from Medline. Genome Informatics, 11, 450-451. . Publication link: fdc4babf-cd9b-43e0-bbed-28860ff2f7de
  • Maynard, D., & Ananiadou, S. (2000). Identifying Terms by their Family and Friends. In {COLING} 2000, 18th International Conference on Computational Linguistics, Proceedings of the Conference, 2 Volumes, July 31 - August 4, 2000, Universität des Saarlandes, Saarbrücken, Germany. (pp. 530-536). Publication link: ff627867-3bb1-493b-9769-481e1ef92265

1999

  • Mima, H., Ananiadou, S., & Tsujii, J. (1999). A Web-based integrated knowledge mining aid system using term-oriented Natural Language Processing. In Proc. Natural Language Pacific Rim Symposium (NLPRS ???99). (pp. 13-18). Publication link: 09d8aaf4-6183-46fc-b493-b1ca98f8a17a
  • Frantzi, K., & Ananiadou, S. (1999). Clustering terms using the C-value method for automatic term recognition. In Proc. 5th Int. Congress on Terminology and Knowledge Engineering (TKE 99). (pp. 356-366). Publication link: 33ddd2ec-6429-4f4f-92e3-7c301f70e3de
  • Frantzi, K. T., Ananiadou, S., & Tsujii, J. (1999). Classifying Technical Terms. In Electronic Publishing '99, Redefining the Information Chain - New Ways and Voices: 3rd ICCC/IFIP conference held at the University of Karlskrona/Ronneby - ELPUB 1999, Karlskrona, Sweden, May 10-12, 1999. Proceedings.. Publication link: 8970677f-26ce-4348-b9fb-b54fd16740ce
  • Maynard, D., & Ananiadou, S. (1999). Incorporating linguistic information for multi-word term extraction. In Proc. 2nd Computational Linguistics, UK Research Colloquium (CLUK2).. Publication link: 595341bd-89c6-41b3-97ed-dcedd1aa431e
  • Maynard, D., & Ananiadou, S. (1999). A linguistic approach to terminological context clustering. In Proc. Natural Language Pacific Rim Symposium (NLPRS ???99). (pp. 346-351). Publication link: cc9c37d8-8210-4063-abaa-019831cd62a9
  • Frantzi, K., Ananiadou, S., & Tsujii, J. (1999). Automatic classification of technical terms using the NC-value method for term recognition. In Proc. Int. Conf. on Computational Lexicography (COMPLEX ???99). (pp. 57-66). Publication link: cb71e3f3-6fec-4b4a-9f41-9382b83e4b99
  • Maynard, D., & Ananiadou, S. (1999). Identifying contextual information for multi-word term extraction. In Proc. 5th Int. Congress on Terminology and Knowledge Engineering (TKE 99). (pp. 212-221). Publication link: add5f0a8-c6cf-494e-acb6-226a86900265

1998

  • Marshall, P., Bandar, Z., & Ananiadou, S. (1998). A connectionist approach to term recognition. In Proc. 12th Int. Conf. on Artificial Intelligence and Expert Systems Applications.. Publication link: bbb28a97-fda1-45ac-bcd9-b1090ee45fe6
  • Maynard, D., & Ananiadou, S. (1998). Term sense disambiguation using a domain-specific thesaurus. In Proc. 1st Computational Linguistics, UK Research Colloquium (CLUK1).. Publication link: c0b78378-1359-49e2-93fe-e2f5daf74f0a
  • Maynard, D., & Ananiadou, S. (1998). Term sense disambiguation using a domain-specific thesaurus. In Proc. 1st Int. Conf. on Language Resources and Evaluation (LREC ???98). (pp. 681-687). Publication link: de27da64-1ddb-4fff-8f03-4c89292c984e
  • Maynard, D., & Ananiadou, S. (1998). Acquiring contextual information for term disambiguation. In Proc. Int. Workshop on Computational Terminology (COMPUTERM ???98). (pp. 86-90). Publication link: eba5d7ea-640a-4d39-af50-e0ecc828c847
  • Frantzi, K. T., Ananiadou, S., & Tsujii, J. (1998). The C-value/NC-value Method of Automatic Recognition for Multi-Word Terms. In Research and Advanced Technology for Digital Libraries, Second European Conference, ECDL '98, Heraklion, Crete, Greece, September 21-23, 1998, Proceedings. (pp. 585-604). DOI: 10.1007/3-540-49653-X_35. Publication link: 886ad149-1244-43c9-8fcd-0d3093377550
  • Ananiadou, S. (1998). Machine translation trends in Europe and in Japan. In Proc. Translating and the Computer 20.. Publication link: 8acb6953-3e10-49fb-9279-d0c9448c0583
  • Mima, H., Frantzi, K., S, . U., & Ananiadou, S. (1998). The C-value / Example-based approach to the automatic recognition of multi-word terms for cross-language terminology. In Proc. Int. Joint Workshop on Cross-Language Issues in AI. (pp. 10-21). Publication link: 1fd05b5b-1050-4b15-a79d-dd9614334633

1997

  • S, . U., & Ananiadou, S. (1997). Term recognition for information retrieval and information extraction. In Proc. Int. Workshop on NLP and Information Retrieval... Publication link: f79bc843-acc7-4d19-92ec-934250f14c3d
  • Arranz, M. V., Radford, I., Ananiadou, S., & Tsujii, J. (1997). Towards a sublanguage-based semantic clustering algorithm. In R. Mitkov, & N. Nicolov (Eds.), Recent Advances in Natural Language Processing. (pp. 125-136). (Current Issues in Linguistic Theory). Amsterdam: John Benjamins Publishing Company. . Publication link: e67ea406-fbeb-477a-b861-f3e430b7c02a
  • Frantzi, K., & Ananiadou, S. (1997). Context information for the extraction of terms. In Proc. 18th Ann. Mtng. of the Department of Linguistics. Aristotle University of Thessaloniki... Publication link: ceacc22f-54d6-437a-a988-7f7f0345f7af
  • Frantzi, K., Ananiadou, S., & Tsujii, J. (1997). Term identification using contextual cues. In Proc. 2nd Workshop on Multilinguality in the Software Industry: the AI Contribution (MULSAIC???97).. Publication link: c7d59f9c-6a66-49bf-b88f-b7d780f27afd
  • J, . U., Tsujii, . U., S, . U., & Ananiadou, S. (1997). Information retrieval and natural language processing. In Proc. Information Retrieval with Asian Languages (IRAL-97).. Publication link: 96b1dfe0-2848-4687-97b9-0a99393dee09
  • S, . U., Ananiadou, S., & Tsujii, J. (1997). Term disambiguation by adding structural constraints to lexically-based context matching techniques. In Proc. Natural Language Processing Pacific Rim Symposium (NLPRS ???97).. Publication link: 90db2ad8-148d-48ea-bdd0-ff32ba39276a
  • Radford, I., Ananiadou, S., & Tsujii, J. (1997). Adding structural constraints to lexically based context matching techniques. In Proc. Int. Joint Conf. on Artificial Intelligence (IJCAI-97).. Publication link: 1efebe3e-8eff-4126-98e1-ae2d99f80d36
  • Frantzi, K., & Ananiadou, S. (1997). A natural language approach to information retrieval. In Proc. 3rd DELOS Workshop on Cross-Language Information Retrieval.. Publication link: 1d2d968c-fa6d-4883-ae5b-8e7d099179b4

1996

  • Ananiadou, S., Radford, I., & Tsujii, J. (1996). Dynamic hypertext navigation using a conceptual graph representation. In Proc. 4th Int. Conf. on Conceptual Structures.. Publication link: d8d84260-71cb-4c90-a95e-7104711eb5ac
  • Ananiadou, S. (1996). Towards a linguistic treatment of compounds in a machine translation environment. Journal of Natural Language Processing, 3(1), 45-66. . Publication link: 43f5fe7a-238d-4c61-ac50-ef7a9d8b009e
  • Frantzi, K., Ananiadou, S., & Tsujii, J. (1996). Extracting nested collocations. In Proc. Second Ann. Mtng. Association for Natural Language Processing. (pp. 202-212). Publication link: 41a199c3-7fd0-428d-8913-461083e9d10d
  • Frantzi, K., & Ananiadou, S. (1996). A hybrid approach to automatic term recognition. In Proc. Int. Conf. on Natural Language Processing and Industrial Applications. (pp. 93-98). Publication link: 70e724b2-07fd-42ff-b1b3-5012a1d24040
  • Frantzi, K. T., & Ananiadou, S. (1996). Extracting Nested Collocations. In 16th International Conference on Computational Linguistics, Proceedings of the Conference, COLING 1996, Center for Sprogteknologi, Copenhagen, Denmark, August 5-9, 1996. (pp. 41-46). Publication link: 522f087f-be72-4ee3-b34f-b0e861cff753
  • Frantzi, K., Ananiadou, S., & Tsujii, J. (1996). Extracting terminological expressions. The Special Interest Group Notes of Information Processing Society of Japan, 96-NL-112, 83-88. . Publication link: 4d882a44-94b0-4c7c-b81b-15890d7aeab8

1995

  • Arranz, M. V., Radford, I., Ananiadou, S., J, . U., & Tsujii, . U. (1995). Tools for sublanguage-based semantic knowledge acquisition from corpora. Procesamiento del Lenguaje Natural, 17, 182-194. . Publication link: 31d13818-de3a-4f76-ac12-fc7690c2f12f
  • Ananiadou, S. (1995). Automatic recognition of medical terminology (Immunology). In Proc. MedInfo ???95. (pp. 3-8). Publication link: 4d1ce7b8-7a6f-4c66-a173-9852295eef71
  • Radford, I., Arranz, V. M., Ananiadou, S., Tsujii, J., Bolasco, S. (Ed.), Lebart, L. (Ed.), & Salem, A. (Ed.) (1995). Dynamic Context Matching for Knowledge Acquisition from Small Corpora. In Analisi Statistica dei Dati Testuali, Vol. 1. (pp. 321-328). Rome: CISU. . Publication link: 403b230b-9fd8-44b5-b467-ae1017935a95
  • Ananiadou, S., & McNaught, J. (1995). Terms are not alone: Aids for term choice and choice terms. Aslib Proceedings, 47(2), 47-60. DOI: 10.1108/eb051381. Publication link: 08d581f4-f136-4d5a-a519-92e3d27f2e9b
  • Ananiadou, S. R., & Tsujii, J. (1995). Sublanguage knowledge acquisition for hypertext optimisation. In Proc. Natural Language Processing Pacific Rim Symposium. (pp. 455-460). Publication link: 073c8a69-eb9a-4b93-8940-592d3ef169fd
  • Frantzi, K., Ananiadou, S., Bolasco, S. (Ed.), Lebart, L. (Ed.), & Salem, A. (Ed.) (1995). Statistical measures for terminological extraction. In Analisi Statistica dei Dati Testuali, Vol. 1. (pp. 292-304). Rome: CISU. . Publication link: 91985d24-c5c7-4695-9ea9-a03fe072cd37
  • Frantzi, K., & Ananiadou, S. (1995). Towards automatic term recognition. In Proc. 7th Int. Conf. on Artificial Intelligence and Expert Systems Applications (EXPERSYS-95).. Publication link: b9b47755-0046-4934-a126-23e059af9770
  • Frantzi, K., & Ananiadou, S. (1995). Statistical approaches for collocation extraction and term recognition. In Proc. 16th Ann. Mtng. of the Department of Linguistics. (pp. 681-693). Publication link: fb3cab1d-4f07-4245-a958-8c3c56e675b2

1994

  • Tsujii, J., Ananiadou, S., Fuchi, K. (Ed.), & Yokoi, T. (Ed.) (1994). Knowledge-based processing in machine translation. In Knowledge Building and Knowledge Sharing. (pp. 68-81). Toky0: IOS Press. . Publication link: 9e23c0b5-e2de-4fd8-9121-e28e1206715d
  • Ananiadou, S., Albrechtsen, H. (Ed.), & Oernager, S. (Ed.) (1994). A computational linguistic approach to automatic term recognition. In Knowledge Organization and Quality Management, Vol. 4. (pp. 134-141). Frankfurt: Indeks Verlag. . Publication link: c1dea0cd-7ee6-454e-b1ee-2fd66742f6ea
  • Ananiadou, S. (1994). Systematic knowledge elicitation from natural language texts. In Proc. 6th Int. Conf. on Expert Systems Applications & Artificial Intelligence (EXPERSYS-94). (pp. 467-472). Publication link: c153a65d-2e5b-4f06-884e-14a58ed0e298
  • Ananiadou, S. (1994). A Methodology For Automatic Term Recognition. In 15th International Conference on Computational Linguistics, COLING 1994, Kyoto, Japan, August 5-9, 1994. (pp. 1034-1038). Publication link: f4596b21-a3b1-4ce5-9d01-3b60a4fafd39

1993

  • Tsujii, J., & Ananiadou, S. (1993). Epsilon [e]: Tool kit for knowledge acquisition based on a hierarchy of pseudotexts. In Proc. Natural Language Processing Pacific Rim Symposium. (pp. 93-100). Publication link: b843b7e3-9a94-4598-a7e6-48ea9ceab4f1
  • Tsujii, J., & Ananiadou, S. (1993). LBMT, KBMT, SBMT and EBMT: An attempt at integration. In Proc. Int. Workshop on Speech Translation.. Publication link: bf070d42-41cf-4f70-bba0-58a9d8a1db4a
  • Tsujii, J., & Ananiadou, S. (1993). Knowledge-based processing in machine translation. In Proc. Int. Conf. on Building and Sharing of Very Large-Scale Knowledge Bases.. Publication link: 5e00051a-c597-4408-8be7-5d663164cae7
  • Ananiadou, S. (1993). A sublanguage approach to automatic term recognition. In Proc. Natural Language Processing Pacific Rim Symposium. (pp. 159-164). Publication link: 378480cd-b573-45a8-8d6f-2f00ab5ad238

1992

  • Olivier, P., Ananiadou, S., Maeda, T., & Tsujii, J. (1992). Visualisation: mediating the interchange of information from the verbal to the visual domain. In Mensch und Maschine - Informationelle Schnittstellen der Kommunikation: Proceedings des 3. Internationalen Symposiums für Informationswissenschaft, ISI 1992, Saarbrücken, Germany, November 5-7, 1992.. (pp. 324-337). Publication link: bbc45fa2-8bc2-49bb-8bba-230e34ca60cc
  • Sekine, S., Carroll, J. J., Ananiadou, S., & Tsujii, J. (1992). Automatic Learning for Semantic Collocation. In Proc. Third Conf. on Applied Natural Language Processing. (pp. 104-110). Publication link: e0f1c190-f74f-41e3-90b4-d42b5c20be1f
  • Sekine, S., Ananiadou, S., Carroll, J. J., & Tsujii, J. (1992). Linguistic Knowledge Generator. In 14th International Conference on Computational Linguistics, COLING 1992, Nantes, France, August 23-28, 1992. (pp. 560-566). Publication link: 7929c2f3-44ff-403b-aa37-b7deca95f12e
  • P, . U., Olivier, . U., Ananiadou, S., & Tsujii, J. (1992). A visualisation architecture based on the systematicity of language. In Proc. Pacific Rim International Conference on AI (PRICAI).. Publication link: 8029f3cd-6c14-42b2-8fab-6deef21586ea

1991

  • Ananiadou, S., & Antona, M. (1991). Multilingual linguistic aspects of machine translation. In Proc. 12th Ann. Mtng. of the Department of Linguistics: Studies in Greek Linguistics. (pp. 291-305). Publication link: 356ffccd-472c-43e2-bccf-e63f618af6c3
  • Ananiadou, S., Ralli, A., & Villalva, A. (1991). The treatment of derivational morphology in a multilingual transfer-based machine translation system: EUROTRA. Language Research, 27(4), 627-638. . Publication link: 54aadb3e-4d51-476d-b227-e1767cd804ac
  • Tsujii, J., Ananiadou, S., Carroll, J. J., & Phillips, J. D. (1991). Towards interaction during transfer. In Proc. RCOLING III. (pp. 141-157). Publication link: c15d5e17-445a-4b6b-a80e-08ccc9a13ee7

1990

  • Ananiadou, S. (1990). The treatment of derivational morphology in a multilingual transfer-based machine translation system: EUROTRA. In Proc. Seoul Int. Conf. on Natural Language Processing (SICONLP/90). (pp. 351-359). Publication link: d5d7dd68-9f91-43ef-909a-f28081d5d864
  • Ananiadou, S. (1990). The use of sublanguages in machine translation. In Proc. UK Speech and Language Technology Club Workshop on Machine Translation.. Publication link: 9c487f96-3502-446d-975c-4448208738d1
  • Ananiadou, S., & Mcnaught, J. (1990). Treatment of compounds in a transfer-based MT system. In Proc. 3rd Int. Conf. on Theoretical and Methodological Issues in Machine Translation. (pp. 57-63). Publication link: 9619bfd3-b991-4b24-bfe6-c2847f13c197
  • Ananiadou, S. (1990). Sublanguage studies as the basis for computer support for multilingual communication. In Proc. Terminology and Planning (Termplan-90).. Publication link: 35823a46-7bff-4bdb-b18a-514c56e89f09

1989

1988

  • Ananiadou, S., Czap, H. (Ed.), & Galinski, C. (Ed.) (1988). The Impact of Knowledge Engineering on the Training of Terminologists. In TKE-87: Terminology and Knowledge Engineering, Supplement. (pp. 118-120). Frankfurt: Indeks Verlag. . Publication link: 90645ab3-8b3b-48d6-a4c1-f70e706bf27d

1987

  • Ananiadou, S., & King, M. (Ed.) (1987). A brief survey of some current operational systems. In Machine Translation Today. (pp. 171-191). Edinburgh: Edinburgh University Press. . Publication link: dda61830-3636-4a34-860f-51331ee411cc

1986

  • Ananiadou, S., Fornu, A. (Ed.), & Vanparijs, J. (Ed.) (1986). Present and future contributions of the Eurotra project to languages for special purposes. In Beads or Bracelet: How do we approach LSP?. (pp. 357-365). Oxford: Oxford University Press. . Publication link: ae4ecfd7-0829-45b8-abd3-c1f17c1c2b40