Publications

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Papers

Bahar Sateli and René Witte. An Automatic Workflow for the Formalization of Scholarly Articles' Structural and Semantic Elements. To appear in Semantic Web Evaluation Challenges (SemWebEval 2016) at ESWC 2016}, Volume 641 of Springer CCIS.

Bahar Sateli, Felicitas Löffler, Birgitta König-Ries, and René Witte. Semantic User Profiles: Learning Scholars' Competences by Analyzing their Publications. Semantics, Analytics, Visualisation: Enhancing Scholarly Data (SAVE-SD 2016), Workshop at WWW 2016, April 11, 2016, Montréal, Canada.

Bahar Sateli, René Witte, Automatic Construction of a Semantic Knowledge Base from CEUR Workshop Proceedings, Semantic Web Evaluation Challenges (SemWebEval 2015) at ESWC 2015, Portorož, Slovenia, May 31–June 4, pp.129–141 2015, Revised Selected Papers. Springer CCIS 548. Winner, Semantic Publishing Challenge, Task 2, "Most Innovative Approach" Award.

Bahar Sateli, René Witte, What's in this paper? Combining Rhetorical Entities with Linked Open Data for Semantic Literature Querying, Semantics, Analytics, Visualisation: Enhancing Scholarly Data (SAVE-SD 2015), Workshop at WWW 2015, Florence, Italy. ACM, pp. 1023–1028, 2015. Received Best Paper Award

Felicitas Löffler, Bahar Sateli, René Witte, and Birgitta König-Ries. Towards Semantic Recommendation of Biodiversity Datasets based on Linked Open Data, The 26th GI-Workshop on Foundations of Databases (Grundlagen von Datenbanken), 21–24 October, 2014, Bozen, Italy. CEUR-WS.org, Vol.1313, pp.65–70.

Bahar Sateli and René Witte. Supporting Researchers with a Semantic Literature Management Wiki, SePublica Semantic Publishing Workshop at ESWC 2014, May 25, 2014, Anissaras, Crete, Greece. CEUR Workshop Proceedings, Vol.1155.

Bahar Sateli, Sebastien Luong, and René Witte. TagCurate: crowdsourcing the verification of biomedical annotations to mobile users, NETTAB 2013 workshop focused on Semantic, Social, and Mobile Applications for Bioinformatics and Biomedical Laboratories, Venice Lido, Italy. EMBnet.journal, Vol.19 Suppl.B, pp.24–26, 10/2013.

Bahar Sateli, Gina Cook, and René Witte. Smarter Mobile Apps through Integrated Natural Language Processing Services. The 10th International Conference on Mobile Web Information Systems (MobiWIS 2013), 26–28 August, 2013, Paphos, Cyprus. Springer LNCS 8093, pp.187–202.

Bahar Sateli, Elian Angius, and René Witte. The ReqWiki Approach for Collaborative Software Requirements Engineering with Integrated Text Analysis Support. The 37th Annual International Computer Software & Applications Conference (COMPSAC 2013), Kyoto, Japan, July 22–26, 2013. IEEE. (Acceptance rate: 23%)
Publications
Abderahman Rashwan, Olga Ormandjieva and René Witte. Classification of Non-Functional Requirements in Software Specifications: A new Corpus and SVM-Based Classifier. The 37th Annual International Computer Software & Applications Conference (COMPSAC 2013), Kyoto, Japan, July 22–26, 2013. IEEE.

Fedor Bakalov, Marie-Jean Meurs, Birgitta König-Ries, Bahar Sateli, René Witte, Greg Butler, and Adrian Tsang. An Approach to Controlling User Models and Personalization Effects in Recommender Systems. International Conference on Intelligent User Interfaces (IUI 2013), Santa Monica, CA, USA, March 19–22, 2013. ACM. doi: 10.1145/2449396.2449405. (Acceptance rate: 22%)

Bahar Sateli, Marie-Jean Meurs, Greg Butler, Justin Powlowski, Adrian Tsang, and René Witte. IntelliGenWiki: An Intelligent Semantic Wiki for Life Sciences. In NETTAB 2012 workshop focused on Integrated Bio-Search, November 14–16, 2012, Como, Italy. EMBnet.journal, Vol.18(Supplement B), pp.50–52, 2012.

Bahar Sateli, Elian Angius, Srinivasan S. Rajivelu, and René Witte. Can Text Mining Assistants Help to Improve Requirements Specifications? Workshop on Mining Unstructured Data (MUD 2012), Kingston, ON, Canada, October 17, 2012.

Fedor Bakalov, Marie-Jean Meurs, Birgitta König-Ries, Bahar Sateli, René Witte, Greg Butler, and Adrian Tsang. Personalized Semantic Assistance for the Curation of Biochemical Literature. IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2012), Philadelphia, PA, USA, October 4–7, 2012. IEEE.

Fedor Bakalov, Bahar Sateli, René Witte, Marie-Jean Meurs, and Birgitta König-Ries. Natural Language Processing for Semantic Assistance in Web Portals. IEEE International Conference on Semantic Computing (ICSC 2012), Palermo, Italy, September 19–21, 2012. IEEE.

Bahar Sateli and René Witte. Natural Language Processing for MediaWiki: The Semantic Assistants Approach. 8th International Symposium on Wikis and Open Collaboration (WikiSym 2012), August 27–29, 2012, Linz, Austria. ACM.

Marie-Jean Meurs, Caitlin Murphy, Ingo Morgenstern, Nona Naderi, Greg Butler, Justin Powlowski, Adrian Tsang and René Witte. Semantic Text Mining for Lignocellulose Research. ACM Fifth International Workshop on Data and Text Mining in Biomedical Informatics, October 24, 2011, Glasgow, UK.

Marie-Jean Meurs, Caitlin Murphy, Nona Naderi, Ingo Morgenstern, Carolina Cantu, Shary Semarjit, Greg Butler, Justin Powlowski, Adrian Tsang and René Witte. Towards Evaluating the Impact of Semantic Support for Curating the Fungus Scientific Literature. The 3rd Canadian Semantic Web Symposium (CSWS2011), August 5, 2011, Vancouver, BC, Canada.

René Witte, Bahar Sateli, Ninus Khamis, and Juergen Rilling. Intelligent Software Development Environments: Integrating Natural Language Processing with the Eclipse Platform. 24th Canadian Conference on Artificial Intelligence (AI 2011), May 25–27, 2011, St. John's, Canada. (Acceptance rate: 28%)

Ninus Khamis, René Witte, and Juergen Rilling. Automatic Quality Assessment of Source Code Comments: The JavadocMiner. 15th International Conference on Applications of Natural Language to Information Systems (NLDB 2010), June 23–25, Cardiff, UK. (Acceptance rate: 30%)

René Witte and Ralf Krestel. Semantic Content Access using Domain-Independent NLP Ontologies. 15th International Conference on Applications of Natural Language to Information Systems (NLDB 2010), June 23–25, Cardiff, UK. Springer LNCS 6177, pp. 36–47. (Acceptance rate: 30%)

Alexandre Kouznetsov, Bradley Shoebottom, René Witte and Christopher J.O. Baker. Leverage of OWL-DL axioms in a Contact Centre for Technical Product Support. OWL: Experiences and Directions (OWLED 2010), Seventh International Workshop, June 21–22, 2010, San Francisco, California, USA.

Ninus Khamis, Juergen Rilling, and René Witte. Generating an NLP Corpus from Java Source Code: The SSL Javadoc Doclet. New Challenges for NLP Frameworks, Workshop at LREC 2010, pp.41–45, May 22, 2010, Valletta, Malta.

Ralf Krestel, René Witte, and Sabine Bergler. Predicate-Argument EXtractor (PAX). New Challenges for NLP Frameworks, Workshop at LREC 2010, pp.51–54, May 22, 2010, Valletta, Malta.

René Witte, Ninus Khamis, and Juergen Rilling. Flexible Ontology Population from Text: The OwlExporter. The Seventh International Conference on Language Resources and Evaluation (LREC 2010), pp.3845–3850, May 19–21, 2010, Valletta, Malta.

Ralf Krestel, René Witte, and Sabine Bergler. Believe It or Not: Solving the TAC 2009 Textual Entailment Tasks through an Artificial Believer System. Proceedings of the Second Text Analysis Conference (TAC 2009), November 16–17, 2009, National Institute of Standards and Technology, Gaithersburg, Maryland, USA. NIST.

Philipp Schugerl, Juergen Rilling, René Witte, and Philippe Charland. A Quality Perspective of Evolvability Using Semantic Analysis. Third IEEE International Conference on Semantic Computing (ICSC 2009), pp. 420–427, September 14–16, 2009, Berkeley, CA, USA. (Acceptance rate: 30%)

René Witte and Thomas Gitzinger. Semantic Assistants – User-Centric Natural Language Processing Services for Desktop Clients. 3rd Asian Semantic Web Conference (ASWC 2008), February 2–5, 2009, Bangkog, Thailand. Springer LNCS 5367, pp. 360–374. (Acceptance rate: 31%)

Ralf Krestel, Sabine Bergler, and René Witte. A Belief Revision Approach to Textual Entailment Recognition. Text Analysis Conference (TAC), November 17-19, 2008, National Institute of Standards and Technology (NIST), Gaithersburg, Maryland, USA.

Sylvain Bellemare, Sabine Bergler, and René Witte. ERSS at TAC 2008. Text Analysis Conference (TAC), November 17-19, 2008, National Institute of Standards and Technology (NIST), Gaithersburg, Maryland, USA.

René Witte and Thomas Gitzinger. A General Architecture for Connecting NLP Frameworks and Desktop Clients using Web Services. 13th International Conference on Applications of Natural Language to Information Systems (NLDB 2008), June 24–27, 2008, London, UK. Springer LNCS 5039, pp. 317–322.

Juergen Rilling, René Witte, Dragan Gašević, and Jeff Z. Pan. Semantic Technologies in System Maintenance. Proceedings of the 16th IEEE International Conference on Program Comprehension (ICPC), June 10–13, 2008, Amsterdam, The Netherlands. IEEE.

René Witte, Thomas Gitzinger, Thomas Kappler, and Ralf Krestel. A Semantic Wiki Approach to Cultural Heritage Data Management. Language Technology for Cultural Heritage Data (LaTeCH 2008), Workshop at LREC 2008, June 1st, 2008, Marrakech, Morocco.

Thomas Gitzinger and René Witte. Enhancing the OpenOffice.org Word Processor with Natural Language Processing Capabilities. Natural Language Processing resources, algorithms and tools for authoring aids, Workshop at LREC 2008, June 1st, 2008, Marrakech, Morocco.

Ralf Krestel, Sabine Bergler, and René Witte. Minding the Source: Automatic Tagging of Reported Speech in Newspaper Articles. Proceedings of the Sixth International Language Resources and Evaluation Conference (LREC 2008), May 28–30, 2008, Marrakech, Morocco.

René Witte and Thomas Gitzinger. Connecting Wikis and Natural Language Processing Systems. Proceedings of the 2007 International Symposium on Wikis (WikiSym 2007), pp. 165–176, October 21–23, 2007, Montréal, Canada. Co-located with ACM OOPSLA 2007. ACM, New York, NY, USA.

René Witte and Sabine Bergler. Next-Generation Summarization: Contrastive, Focused, and Update Summaries. International Conference on Recent Advances in Natural Language Processing (RANLP 2007), September 27–29, 2007, Borovets, Bulgaria.

Ralf Krestel, René Witte and Sabine Bergler. Processing of Beliefs extracted from Reported Speech in Newspaper Articles. International Conference on Recent Advances in Natural Language Processing (RANLP 2007), September 27–29, 2007, Borovets, Bulgaria.

René Witte and Ting Tang. Task-Dependent Visualization of Coreference Resolution Results. International Conference on Recent Advances in Natural Language Processing (RANLP 2007), September 27–29, 2007, Borovets, Bulgaria.

René Witte, Qiangqiang Li, Yonggang Zhang, and Juergen Rilling. Ontological Text Mining of Software Documents. 12th International Conference on Applications of Natural Language to Information Systems (NLDB 2007), June 27–29, 2007, CNAM, Paris, France. Springer LNCS 4592, pp.168–180. Acceptance rate: 28%.

René Witte, Yonggang Zhang, and Juergen Rilling. Empowering Software Maintainers with Semantic Web Technologies. 4th European Semantic Web Conference (ESWC 2007), June 3–7, 2007, Innsbruck, Austria. Springer LNCS 4519, pp.37–52. Acceptance rate: 17%. Received Best Paper Award.

René Witte and Sabine Bergler. Fuzzy Clustering for Topic Analysis and Summarization of Document Collections. In: Advances in Artificial Intelligence, Proceedings of the 20th Conference of the Canadian Society for Computational Studies of Intelligence (Canadian AI 2007), May 28–30, 2007, Montréal, Québec, Canada. Springer LNAI 4509, pp.476–488. Acceptance rate: 17.7%. Received Best Paper Award.

Ralf Krestel, René Witte, and Sabine Bergler. Creating a Fuzzy Believer to Model Human Newspaper Readers. In: Advances in Artificial Intelligence, Proceedings of the 20th Conference of the Canadian Society for Computational Studies of Intelligence (Canadian AI 2007), May 28–30, 2007, Montréal, Québec, Canada. Springer LNAI 4509, pp.476–488. Acceptance rate: 17.7%.

René Witte, Ralf Krestel, and Sabine Bergler. Generating Update Summaries for DUC 2007. In: Document Understanding Conference (DUC) Workshop at NAACL-HLT 2007, April 26–27, 2007, Rochester, NY, USA.

Juergen Rilling, René Witte, and Yonggang Zhang. Automatic Traceability Recovery: An Ontological Approach. In International Symposium on Grand Challenges in Traceability (GCT'07), Center of Excellence in Traceability, March 22–23, 2007, Lexington, Kentucky, USA. ACM.

Juergen Rilling, Yonggang Zhang, Wen Jun Meng, René Witte, Volker Haarslev, and Philippe Charland. A Unified Ontology-Based Process Model for Software Maintenance and Comprehension. Models in Software Engineering: Workshops and Symposia at MoDELS 2006, Genoa, Italy, October 1–6, 2006, Reports and Revised Selected Papers, pp.56–65, LNCS 4364, 2007, Springer.

Wen Jun Meng, Juergen Rilling, Yonggang Zhang, René Witte, and Philippe Charland. An Ontological Software Comprehension Process Model. In: 3rd International Workshop on Metamodels, Schemas, Grammars, and Ontologies for Reverse Engineering (ATEM 2006). October 1st, Genoa, Italy. Received joint Best Paper Award with our second ATEM contribution (see below).

Yonggang Zhang, René Witte, Juergen Rilling, and Volker Haarslev. An Ontology-based Approach for the Recovery of Traceability Links. In: 3rd International Workshop on Metamodels, Schemas, Grammars, and Ontologies for Reverse Engineering (ATEM 2006). October 1st, Genoa, Italy. Received joint Best Paper Award with our second ATEM contribution (see above).

Wen Jun Meng, Juergen Rilling, Yonggang Zhang, René Witte, Sudhir Mudur, and Philippe Charland. A Context-Driven Software Comprehension Process Model. Second International IEEE Workshop on Software Evolvability at the IEEE International Conference on Software Maintenance (ICSM), 24 September 2006, Philadelphia, Pennsylvania, USA.

Yonggang Zhang, René Witte, Juergen Rilling, and Volker Haarslev. Ontology-based Program Comprehension Tool Supporting Website Architectural Evolution. 8th IEEE International Symposium on Web Site Evolution (WSE 2006), pp. 41–49, September 23–24, 2006, Philadelphia, PA, USA. IEEE.

René Witte, Ralf Krestel, and Sabine Bergler. Context-based Multi-Document Summarization using Fuzzy Coreference Cluster Graphs. In: Document Understanding Conference (DUC) Workshop at HLT-NAACL 2006, June 8–9, 2006, New York City, NY, USA.

René Witte, Petra Gerlach, Markus Joachim, Thomas Kappler, Ralf Krestel, and Praharshana Perera. Engineering a Semantic Desktop for Building Historians and Architects. In: 1st Workshop on The Semantic Desktop – Next Generation Personal Information Management and Collaboration Infrastructure at the International Semantic Web Conference (ISWC), November 6, 2005, Galway, Ireland. CEUR Workshop Proceedings, ISSN 1613-0073.

René Witte, Ralf Krestel, and Sabine Bergler. ERSS 2005: Coreference-Based Summarization Reloaded. In: Document Understanding Workshop (DUC) at HLT/EMNLP 2005, October 9–10, 2005, Vancouver, B.C., Canada.

Praharshana Perera and René Witte. A Self-Learning Context-Aware Lemmatizer for German. Human Language Technology Conference/Conference on Empirical Methods in Natural Language Processing (HLT/EMNLP 2005), pp. 636-643, October 6–8, 2005, Vancouver, B.C., Canada. Acceptance rate: 31.6%.

Peter C. Lockemann and René Witte. Agents and Databases: Friends or Foes? Invited Paper, International Database Engineering and Applications Symposium (IDEAS), IEEE Computer Society, pp. 137-147, July 25–27, 2005, Montréal, Canada.

Christopher J.O. Baker, René Witte, Arash Shaban-Nejad, Greg Butler, and Volker Haarslev. The FungalWeb Ontology: Application Scenarios. Eighth Annual Bio-Ontologies Meeting, June 24, 2005, Detroit, Michigan, USA.

René Witte and Christopher J.O. Baker. Combining Biological Databases and Text Mining to support New Bioinformatics Applications. 10th International Conference on Applications of Natural Language to Information Systems (NLDB), Springer LNCS 3513, pp. 310–321, June 15–17, 2005, Alicante, Spain.

Christopher J.O. Baker and René Witte. Mutation Miner - Textual Annotation of Protein Structures. In: 5th Annual CERMM (Centre for Research in Molecular Modeling) Symposium 2005, p.29, February 11–13, 2005, Concordia University, Montréal, Québec, Canada.

Christopher J.O. Baker and René Witte. Enriching Protein Structure Visualizations with Mutation Annotations Obtained by Text Mining Protein Engineering Literature. In: The Third Canadian Working Conference on Computational Biology (CCCB'04), October 4th, 2004, Markham, Ontario, Canada.

René Witte. An Integration Architecture for User-Centric Document Creation, Retrieval, and Analysis. In Proceedings of the VLDB Workshop on Information Integration on the Web (IIWeb 2004), August 30th, 2004, Toronto, Canada.

Sabine Bergler, René Witte, Zhuoyan Li, Michelle Khalifé, Yunyu Chen, Monia Doandes, and Alina Andreevskaia. Multi-ERSS and ERSS 2004. In: Document Understanding Workshop (DUC 2004), May 6–7, 2004, Boston Park Plaza Hotel and Towers, Boston, USA. NIST. Workshop at HLT/NAACL 2004.

René Witte and Ulrike Kölsch. Supporting Reverse Engineering Tasks with a Fuzzy Repository Framework. In: Softwaretechnik-Trends, Band 24, Heft 2, ISSN 0720-8928, Sonderteil: 6. Workshop Software-Reengineering, May 3-5 2004, Bad Honnef, Germany.

Sabine Bergler, Monia Doandes, Christine Gerard, and René Witte. Attributions. In: Yan Qu, James G. Shanahan, Janyce Wiebe (Eds.), Exploring Attitude and Affect in Text: Theories and Applications, ISBN 1-57735-219-x, SS-04-07, AAAI Technical Report Series, AAAI Press. Papers from the 2004 AAAI Spring Symposium, March 22–25 2004, Stanford, California, USA.

Ulrike Kölsch and René Witte. Fuzzy Extensions for Reverse Engineering Repository Models. Proceedings of the 10th Working Conference on Reverse Engineering (WCRE 2003), pp.113–122, November 13-16, 2003, Victoria, BC, Canada. IEEE.

René Witte and Sabine Bergler. Fuzzy Coreference Resolution for Summarization. Proceedings of 2003 International Symposium on Reference Resolution and Its Applications to Question Answering and Summarization (ARQAS), pp.43–50, June 23–24, 2003, Università Ca' Foscari, Venice, Italy.

Sabine Bergler, René Witte, Michelle Khalife, Zhuoyan Li, and Frank Rudzicz. Using Knowledge-poor Coreference Resolution for Text Summarization. Workshop on Text Summarization, Document Understanding Conference (DUC), May 31–June 1, 2003, Edmonton, Canada. NIST.

René Witte. Fuzzy Belief Revision. Proceedings of the 9th International Workshop on Non-Monotonic Reasoning (NMR'02), pp.311–320, April 19-21, 2002, Toulouse, France.


more publications

Journal Articles

Bahar Sateli and René Witte. Semantic representation of scientific literature: bringing claims, contributions and named entities onto the Linked Open Data cloud. PeerJ Computer Science, Vol.1, No. e37, 12/2015.

Ralf Krestel, Sabine Bergler, and René Witte. Modeling human newspaper readers: The Fuzzy Believer approach. Natural Language Engineering, Volume 20, Issue 02, pp.261–288, April 2014 (Published Online: October 12, 2012). doi:10.1017/S1351324912000289. (Impact Factor: 0.474)

Ninus Khamis, Juergen Rilling, and René Witte. Assessing the quality factors found in in-line documentation written in natural language: The JavadocMiner, Data & Knowledge Engineering, Volume 87, September 2013, Pages 19–40, 2013. DOI: 10.1016/j.datak.2013.02.001. (Impact Factor: 1.519 (2012); 5-Year Impact Factor: 1.710)

Nona Naderi and René Witte. Automated extraction and semantic analysis of mutation impacts from the biomedical literature. BMC Genomics, Vol 13 (Suppl 4):S10, 2012. doi:10.1186/1471-2164-13-S4-S10. (Impact Factor: 4.21)

Marie-Jean Meurs, Caitlin Murphy, Ingo Morgenstern, Greg Butler, Justin Powlowski, Adrian Tsang, and René Witte. Semantic text mining support for lignocellulose research. BMC Medical Informatics and Decision Making, Vol.12, Suppl.1, pp.S5, 04/2012. doi:10.1186/1472-6947-12-S1-S5. (Impact Factor: 2.23).

Nona Naderi, Thomas Kappler, Christopher J.O. Baker, and René Witte. OrganismTagger: Detection, normalization, and grounding of organism entities in biomedical documents. Bioinformatics, Vol. 27, No. 19, pp.2721–2729, Oxford University Press, 2011. DOI: 10.1093/bioinformatics/btr452. (Impact Factor: 5.468).
doi:10.1186/2041-1480-2-S5-S11

Rebholz-Schuhmann et al. Assessment of NER solutions against the first and second CALBC Silver Standard Corpus. Journal of Biomedical Semantics, 2(Suppl 5):S11, 2001. doi:10.1186/2041-1480-2-S5-S11. (Unofficial Impact Factor: 2.54).

Jonas B Laurila, Nona Naderi, René Witte, Alexandre Riazanov, Alexandre Kouznetsov, and Christopher J.O. Baker. Algorithms and semantic infrastructure for mutation impact extraction and grounding. BMC Genomics, Vol. 11, No. Suppl 4, pp. S24, December 2010.

René Witte, Ralf Krestel, Thomas Kappler, and Peter C. Lockemann. Converting a Historical Architecture Encyclopedia into a Semantic Knowledge Base. IEEE Intelligent Systems. Vol. 25, No. 1, January/February 2010, pp.58–66.

Juergen Rilling, René Witte, Philipp Schuegerl, and Philippe Charland. Beyond Information Silos — An Omnipresent Approach to Software Evolution. International Journal of Semantic Computing (IJSC), Vol. 2, No. 4, 2008, pp. 431–468. Special Issue on Ambient Semantic Computing.

Juergen Rilling, Wen Jun Meng, René Witte, and Philippe Charland. Story Driven Approach to Software Evolution. IET Software Journal, Volume 2, Number 4, August 2008, pp. 304–320. Special Section on Software Evolvability.

Yonggang Zhang, René Witte, Juergen Rilling, and Volker Haarslev. Ontological Approach for the Semantic Recovery of Traceability Links between Software Artifacts. IET Software, Special issue on Language Engineering, Volume 2, Issue 3, June 2008, pp. 185–203.

René Witte, Qiangqiang Li, Yonggang Zhang, and Juergen Rilling. Text Mining and Software Engineering: An Integrated Source Code and Document Analysis Approach. IET Software Journal, Volume 2, Issue 1, February 2008, pp. 3–16. Special Section on Natural Language in Software Engineering.

René Witte and Christopher J. O. Baker. Towards a Systematic Evaluation of Protein Mutation Extraction Systems. Journal of Bioinformatics and Computational Biology (JBCB), Volume 5, Issue 6, December 2007, pp. 1339–1359. PMID: 18172932.

René Witte, Thomas Kappler, and Christopher J. O. Baker. Enhanced Semantic Access to the Protein Engineering Literature using Ontologies Populated by Text Mining. International Journal of Bioinformatics Research and Applications (IJBRA), Volume 3, Issue 3, 2007. PMID: 18048198.

Christopher J. O. Baker and René Witte. Mutation mining—A prospector's tale. Journal of Information Systems Frontiers (ISF), Springer, Volume 8, Issue 1, Feb 2006, pp. 47–57.


Authored Books

René Witte. Architektur von Fuzzy-Informationssystemen. BoD, Norderstedt, Germany, 2002. ISBN 3-8311-4149-5.


Book Chapters

René Witte, Thomas Kappler, Ralf Krestel, and Peter C. Lockemann. Integrating Wiki Systems, Natural Language Processing, and Semantic Technologies for Cultural Heritage Data Management. In Language Technology for Cultural Heritage, pp.213–230, Springer Verlag, 2011.

René Witte, Thomas Kappler, and Christopher J. O. Baker. Ontology Design for Biomedical Text Mining. Chapter 13 in Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences, Springer Verlag, 2007.


Edited Proceedings

René Witte, Christopher J.O. Baker, Greg Butler, and Michel Dumontier (Editors). Proceedings of the 4th Canadian Semantic Web Symposium (CSWS 2013), CEUR Workshop Proceedings, Vol. 1054, ISSN 1613-0073.

Christopher J.O. Baker, René Witte, and Dietrich Rebholz-Schuhmann (Editors). Annotation, Interpretation and Management of Mutations (AIMM 2010), A workshop at ECCB 2010, Ghent, Belgium, September 26th, 2010. CEUR Workshop Proceedings, Vol. 645, ISSN 1613-0073.

René Witte, Hamish Cunningham, Jon Patrick, Elena Beisswanger, Ekaterina Buyko, Udo Hahn, Karin Verspoor, and Anni R. Coden (Editors). Proceedings of the Workshop New Challenges for NLP Frameworks (NLPFrameworks 2010), May 22, 2010, Valletta, Malta. ELRA.


Posters & Demos

Bahar Sateli and René Witte. From Papers to Triples: An Open Source Workflow for Semantic Publishing Experiments. To appear at Semantics, Analytics, Visualisation: Enhancing Scholarly Data (SAVE-SD 2016), Workshop at WWW 2016, April 11, 2016, Montréal, Canada.

Bahar Sateli and René Witte. Semantic MediaWiki (SMW) for Scientific Literature Management. The 9th Semantic MediaWiki Conference (SMWCon Spring 2014), May 21–23, 2014, Montréal, QC, Canada.

Bahar Sateli and René Witte. Collaborative Semantic Management and Automated Analysis of Scientific Literature. The 11th Extended Semantic Web Conference (ESWC 2014), May 25–29, 2014, Anissaras, Crete, Greece. Springer LNCS 8798.

Felicitas Löffler, Bahar Sateli, Birgitta König-Ries, and René Witte. Semantic Content Processing in Web Portals. 4th Canadian Semantic Web Symposium (CSWS 2013), CEUR Workshop Proceedings, Vol. 1054, pp.50–51, Montréal, QC, Canada, July 10, 2013.

Fedor Bakalov, Marie-Jean Meurs, Birgitta König-Ries, Bahar Sateli, René Witte, Greg Butler, and Adrian Tsang. Empowering web portal users with personalized text mining services, NETTAB 2012 workshop focused on Integrated Bio-Search, November 14–16, 2012, Como, Italy. EMBnet.journal, Vol.18(Supplement B), pp.81–83, 2012. Won Best Poster Award at NETTAB 2012

Elian Angius and René Witte, OpenTrace: an Open Source Workbench for Automatic Software Traceability Link Recovery, 19th Working Conference on Reverse Engineering (WCRE 2012), pp.507–508, October 15–18, 2012, Kingston, ON, Canada. IEEE Computer Society.

Bahar Sateli, Srinivasan Sembakkam Rajivelu, Elian Angius and René Witte. ReqWiki: A Semantic System for Collaborative Software Requirements Engineering. 8th International Symposium on Wikis and Open Collaboration (WikiSym 2012), August 27–29, 2012, Linz, Austria. ACM.

Bahar Sateli and René Witte. Supporting Wiki Users with Natural Language Processing. 8th International Symposium on Wikis and Open Collaboration (WikiSym 2012), August 27–29, 2012, Linz, Austria. ACM.

Marie-Jean Meurs, Bahar Sateli, Caitlin Murphy, René Witte, Greg Butler, Justin Powlowski, and Adrian Tsang. mycoMINE: un systéme de fouille de texte sémantique dédié à la recherche de biocarburants de seconde génération. 80th Conference of the Association Francophone Pour le Savoir (ACFAS 2012), May 7–11, 2012, Montréal, QC, Canada.

Bahar Sateli, Caitlin Murphy, René Witte, Marie-Jean Meurs, and Adrian Tsang. Text Mining Assistants in Wikis for Biomedical Literature Curation. The Fifth International Biocuration Conference (Biocuration 2012), April 2–4, 2012, Washington, DC, USA.

Bahar Sateli and René Witte. Text Analytics with Eclipse for Software Engineers. CASCON 2011 Technology Showcase, Hilton Suites Toronto/Markham Conference Center, November 7–11, 2011, Markham, ON, Canada.

Nona Naderi and René Witte. Ontology-Based Extraction and Summarization of Protein Mutation Impact Information. Proceedings of the 2010 Workshop on Biomedical Natural Language Processing (BioNLP 2010), pp.128-129. July 15, 2010, Uppsala, Sweden. Association for Computational Linguistics (ACL).

René Witte and Nikolaos Papadakis. Semantic Assistants: SOA for Text Mining. CASCON 2009 Technical Showcase, November 2-9, 2009, Markham, Ontario, Canada.

Juergen Rilling, Philipp Schuegerl, Philippe Charland, and René Witte. SE-Advisor. CASCON Technical Showcase, Sheraton Parkway Toronto North Hotel and Convention Centre, October 27-30, 2008, Toronto, Ontario, Canada.

Ralf Krestel, René Witte, and Sabine Bergler. Fuzzy Set Theory-Based Belief Processing for Natural Language Texts. Twenty-Second AAAI Conference on Artificial Intelligence (AAAI 2007), Student Abstract Program/Poster Presentation, pp.1878–1879, July 22-26, 2007, Vancouver, British Columbia, Canada. AAAI Press.

Christopher J.O. Baker, Arash Shaban-Nejad, René Witte, Volker Haarslev, and Greg Butler. Empowering the Enzyme Biotechnologist with Ontologies. 10th International Congress on Biotechnology in the Pulp and Paper Industry (ICBPPI 2007), June 10–14, 2007, Monona Terrace, Madison, Wisconsin, USA.

Christopher J. O. Baker and René Witte. Mutation Miner. 13th Annual International conference on Intelligent Systems for Molecular Biology (ISMB 2005), June 25–29, 2005, Detroit, Michigan, USA.

Christopher J. O. Baker, René Witte, Ashwin Bhat Gurpur, and Vladislav Ryzhikov. Mutation Miner. 5th International Conference of the Canadian Proteomics Initiative (CPI 2005), May 13-14, 2005, Toronto, Ontario, Canada. Also presented at Knowledge-based Bioinformatics Workshop (KBB), September 21st–23rd, 2005, Montréal, Québec, Canada.


Technical Reports

Juergen Rilling, Philippe Charland, and René Witte. Traceability in Software Engineering—Past, Present and Future. CASCON Workshop, IBM Technical Report: TR-74-211, October 25, 2007.

René Witte and Jutta Mülle (Editors). Text Mining: Wissensgewinnung aus natürlichsprachigen Dokumenten. Interner Bericht 2006-5, Universität Karlsruhe, Fakultät für Informatik, Institut für Programmstrukturen und Datenorganisation (IPD), ISSN 1432-7864, 2006, Karlsruhe, Germany.


Tutorials

René Witte and Bahar Sateli. Adding Natural Language Processing Support to your (Semantic) MediaWiki. The 9th Semantic MediaWiki Conference (SMWCon Spring 2014), May 21–23, 2014, Montréal, Québec, Canada.

Dragan Gašević, René Witte, and Carlo Torniai. Applications for the Semantic Web. 4th Annual International Conference, LORNET Research Network: "User Centered Knowledge Environments: from Theory to Practice" (I2LOR-2007), November 4–7 2007, Montréal, Québec, Canada.

René Witte, Introduction to Text Mining. 10th International Conference on Extending Database Technology (EDBT 2006), March 26–31, 2006, Munich, Germany.