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Research Project: BioRange: A research programme to shape the future for bioinformatics in the Netherlands
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2011

Kulyk, O. and de Kler, T. and de Leeuw, W. and van der Veer, G.C. and van Dijk, E.M.A.G. (2011) Staying Focused: Highlighting-on-Demand as Situational Awareness Support for Groups in Multidisplay Environments. In: Human Aspects of Visualization. Lecture Notes in Computer Science 6431. Springer Verlag, Berlin, pp. 108-126. ISBN 978-3-642-19640-9

2010

Fikkert, F.W. (2010) Gesture Interaction at a Distance. PhD thesis, University of Twente. CTIT Ph.D.-thesis series No. 09-164 ISBN 978-90-365-2973-0
Fikkert, F.W. and Hoeijmakers, N. and van der Vet, P.E. and Nijholt, A. (2010) Fun and Efficiency of the Wii Balance Interface. International Journal of Arts and Technology (IJART), 3 (4). pp. 357-373. ISSN 1754-8853
Fikkert, F.W. and van der Vet, P.E. and Nijholt, A. (2010) User-evaluated Gestures for Touchless Interactions from a Distance. In: IEEE International Symposium on Multimedia, ISM 2010, 13-15 December 2010, Taichung, Taiwan. pp. 153-160. IEEE Computer Society. ISBN 978-1-4244-8672-4
Fikkert, F.W. and van der Vet, P.E. and Nijholt, A. (2010) Gestures in an Intelligent User Interface. In: Multimedia Interaction and Intelligent User Interfaces: Principles, Methods and Applications. Advances in Pattern Recognition. Springer Verlag, London, pp. 215-242. ISSN 1617-7916 ISBN 978-1-84996-506-4
Fikkert, F.W. and van der Vet, P.E. and van der Veer, G.C. and Nijholt, A. (2010) Gestures for Large Display Control. In: Gesture in Embodied Communication and Human-Computer Interaction, 8th International Gesture Workshop, GW 2009. Lecture Notes in Computer Science 5934/2010. Springer Verlag, Berlin / Heidelberg, pp. 245-256. ISSN 1611-3349 ISBN 978-3-642-12552-2
Kulyk, O. (2010) Do You Know What I Know? Situational Awareness of Co-located Teams in Multidisplay Environments. PhD thesis, University of Twente. CTIT Ph.D.-thesis series No. 09-160 ISBN 978-90-365-2938-9
Meij, E. and Trieschnigg, R.B. and de Rijke, M. and Kraaij, W. (2010) Conceptual language models for domain-specific retrieval. Information Processing and Management, 46 (4). pp. 448-469. ISSN 0306-4573 *** ISI Impact 1,397 ***
Trieschnigg, R.B. (2010) Proof of Concept: Concept-based Biomedical Information Retrieval. PhD thesis, University of Twente. CTIT Ph.D.-thesis series No. 10-176 ISBN 978-90-365-3064-4
Trieschnigg, R.B. and Hiemstra, D. and de Jong, F.M.G. and Kraaij, W. (2010) A Cross-lingual Framework for Monolingual Biomedical Information Retrieval. In: Proceedings of the 19th ACM Conference on Information and Knowledge Management (CIKM '10), 26-30 Oct 2010, Toronto, Canada. pp. 169-178. ACM. ISBN 978-1-4503-0099-5
Wassink, I. (2010) Work flows in life science. PhD thesis, University of Twente. CTIT Ph.D.-thesis series No. 09-157 ISBN 978-90-365-2932-7
Wassink, I. and Ooms, M. and Neerincx, P. and van der Veer, G.C. and Rauwerda, H. and Leunissen, J.A.M. and Breit, T.M. and Nijholt, A. and van der Vet, P.E. (2010) e-BioFlow: Improving practical use of workflow systems in bioinformatics. In: Information Technology in Bio- and Medical Informatics, ITBAM 2010, 1-2 Sep 2010, Bilbao, Spain. pp. 1-15. Lecture Notes in Computer Science 6266. Springer Verlag. ISSN 0302-9743 ISBN 978-3-642-15019-7

2009

Brandhorst, C.J. and Sent, D. and Stegwee, R.A. and van Dijk, E.M.A.G. (2009) Medintel: Decision support for general practitioners: a case study. In: Proceedings of MIE 2009 - The XXIInd International Congress of the European Federation for Medical Informatics, 30 Aug - 02 Sep 2009, Sarajevo, Bosnia and Herzegovina. pp. 688-692. IOS Press. ISBN 978-1-60750-044-5
Fikkert, F.W. and Hakvoort, M.C. and van der Vet, P.E. and Nijholt, A. (2009) FeelSound: Collaborative Composing of Acoustic Music. In: Proceedings of the 5th International Conference on Advances in Computer Entertainment Technology (ACE '09), 28 Oct - 01 Nov 2009, Athens, Greece. pp. 294-297. ACM International Conference Proceeding Series 422. ACM. ISBN 978-1-60558-863-6
Fikkert, F.W. and Hakvoort, M.C. and van der Vet, P.E. and Nijholt, A. (2009) FeelSound: interactive acoustic music making. In: Proceedings of the International Conference on Advances in Computer Enterntainment Technology, 29 Oct - 31 Oct 2009, Athens, Greece. pp. 449-449. ACM International Conference Proceeding Series 422. ACM. ISBN 978-1-60558-864-3
Fikkert, F.W. and Hakvoort, M.C. and van der Vet, P.E. and Nijholt, A. (2009) Experiences with Interactive Multi-touch Tables. In: Proceedings 3rd International Conference on Intelligent Technologies for Interactive Entertainment (INTETAIN 09), 22-24 June 2009, Amsterdam, the Netherlands. pp. 193-200. Lecture Notes of the Institute for Computer Sciences, Social-Informatics and Telecommunications Engineering (LNICST) 9. Springer Verlag. ISSN 1867-8211 ISBN 978-3-642-02314-9
Fikkert, F.W. and van der Vet, P.E. and Rauwerda, H. and Breit, T.M. and Nijholt, A. (2009) Gestures to Intuitively Control Large Displays. In: Advances in Gesture-Based Human-Computer Interaction and Simulation. Lecture Notes in Computer Science 5085/2009. Springer Verlag, London, pp. 199-204. ISSN 0302-9743 ISBN 978-3-540-92864-5
Jakobsen, M. R. and Fernandez, R. and Czerwinski, M. and Inkpen, K. and Kulyk, O. and Robertson, G.G. (2009) WIPDash: Work Item and People Dashboard for Software Development Teams. In: Proceedings of International Conference on Human-Computer Interaction (INTERACT'09), 24-28 Aug 2009, Uppsala, Sweden. pp. 791-804. Lecture Notes in Computer Science. Springer Verlag. ISBN 978-3-642-03657-6
Kulyk, O. and van Dijk, E.M.A.G. and van der Vet, P.E. and Nijholt, A. and van der Veer, G.C. (2009) Situational Awareness Support to Enhance Teamwork in Collaborative Working Environments. In: Handbook of research on Socio-Technical Design and Social Networking Systems. Information Science Reference, PA, USA, pp. 635-649. ISBN 978-1-60566-264-0
Ooms, M.J. (2009) Provenance Management in Practice. Master's thesis, University of Twente.
Trieschnigg, R.B. and Pezik, P. and Lee, Vivian and de Jong, F.M.G. and Kraaij, W. and Rebholz-Schuhmann, D. (2009) MeSH Up: effective MeSH text classification for improved document retrieval. Bioinformatics, 25 (11). pp. 1412-1418. ISSN 1367-4803 *** ISI Impact 5,766 ***
Trieschnigg, R.B. and Pezik, P. and Lee, Vivian and de Jong, F.M.G. and Kraaij, W. and Rebholz-Schuhmann, D. (2009) Response to comment on ''MeSH-up: effective MeSH text classification for improved document retrieval''. Bioinformatics, 25 (20). pp. 2772-2772. ISSN 1367-4803 *** ISI Impact 5,766 ***
Wassink, I. and Ooms, M.J. and van der Vet, P.E. (2009) Designing Workflows on the Fly Using e-BioFlow. In: Service-Oriented Computing, 23-27 Nov 2009, Stockholm, Sweden. pp. 470-484. Lecture Notes in Computer Science 5900/2009. Springer Verlag. ISSN 0302-9743 ISBN 978-3-642-10382-7
Wassink, I. and Rauwerda, H. and Neerincx, P.B.T. and van der Vet, P.E. and Breit, T.M. and Leunissen, J.A.M. and Nijholt, A. (2009) Using R in Taverna: RShell v1.2. BMC Research Notes, 2 (138). pp. 1-5. ISSN 1756-0500
Wassink, I. and van der Vet, P.E. and van der Veer, G.C. and Roos, M. and van Dijk, E.M.A.G. (2009) New Interactions with Workflow Systems. In: ECCE 2009 - European Conference on Cognitive Ergonomics: Designing beyond the Product-Understanding Activity and User Experience in Ubiquitous Environments, 30 Sept - 02 Oct 2009, Helsinki, Finland. pp. 349-352. VTT Symposium 258. VTT. ISSN 0357-9387 ISBN 978-951-38-6339-5
Wassink, I. and van der Vet, P.E. and Wolstencroft, K. and Neerincx, P.B.T. and Roos, M. and Rauwerda, H. and Breit, T.M. (2009) Analysing scientific workflows: why workflows not only connect web services. In: IEEE Congress on Services 2009, 06-10 Jul 2009, Los Angeles, CA, USA. pp. 314-321. IEEE Computer Society. ISBN 978-0-7695-3708-5

2008

Fikkert, F.W. and van der Vet, P.E. and Nijholt, A. (2008) Online Segmentation of Continuous Gesturing in Interfaces. In: Proceedings of Measuring Behavior 2008, 6th International Conference on Methods and Techniques in Behavioral Research, 26-29 Aug 2008, Maastricht, The Netherlands. pp. 30-30. Noldus. ISBN 978-90-74821-81-0
Kulyk, O. and van der Veer, G.C. and van Dijk, E.M.A.G. (2008) Situational Awareness Support to Enhance Teamwork in Collaborative Environments. In: Proceedings of the 15th European Conference on Cognitive Ergonomics, 16-19 Sept, Madeira, Portugal. pp. 18-22. ACM. ISBN 978-1-60558-399-0
Kulyk, O. and Wassink, I. and van der Vet, P.E. and van der Veer, G.C. and van Dijk, E.M.A.G. (2008) Sticks, balls or a ribbon? Results of a formative user study with bioinformaticians. Technical Report TR-CTIT-08-72, Centre for Telematics and Information Technology University of Twente, Enschede. ISSN 1381-3625
Li, P. and Castrillo, J.I. and Velarde, G. and Wassink, I. and Soiland-Reyes, S. and Owen, S. and Withers, D. and Oinn, T. and Pocock, M.R. and Goble, C.A. and Oliver, S.G. and Kell, D.B. (2008) Performing statistical analyses on quantitative data in Taverna workflows: an example using R and maxdBrowse to identify differentially-expressed genes from microarray data. BMC Bioinformatics, 9 (334). pp. 1-38. ISSN 1471-2105 *** ISI Impact 2,435 ***
Meij, E. and Trieschnigg, R.B. and de Rijke, M. and Kraaij, W. (2008) Parsimonious concept modeling. In: Proceedings of the 31st annual international ACM SIGIR conference on Research and development in information retrieval, 20-24 Jul 2008, Singapore. pp. 815-816. Annual ACM Conference on Research and Development in Information Retrieval 31. ACM. ISBN 978-1-60558-164-4
Trieschnigg, R.B. (2008) Biomedical cross-language information retrieval. In: Proceedings of the 31st annual international ACM SIGIR conference on Research and development in information retrieval, 20-24 Jul 2008, Singapore. pp. 897-897. Annual ACM Conference on Research and Development in Information Retrieval 31. ACM. ISBN 978-1-60558-164-4
Trieschnigg, R.B. and Meij, E. and de Rijke, M. and Kraaij, W. (2008) Measuring concept relatedness using language models. In: Proceedings of the 31st annual international ACM SIGIR conference on Research and development in information retrieval, 20-24 Jul 2008, Singapore. pp. 823-824. Annual ACM Conference on Research and Development in Information Retrieval 31. ACM. ISBN 978-1-60558-164-4
Vyas, D.M. and Kulyk, O. and van der Vet, P.E. and Nijholt, A. and van der Veer, G.C. (2008) Structures of Life: The Role of Molecular Structures in Scientists' Work. In: 15th European Conference on Cognitive Ergonomics, 16-19 Sept 2008, Madeira, Portugal. pp. 58-61. ACM. ISBN 978-1-60558-399-0
Wassink, I. and Kulyk, O. and van Dijk, E.M.A.G. and van der Veer, G.C. and van der Vet, P.E. (2008) Applying a User-centred Approach to Interactive Visualization Design. In: Trends in Interactive Visualization. Advanced Information and Knowledge Processing. Springer Verlag, London, pp. 175-199. ISBN 978-1-84800-268-5
Wassink, I. and Rauwerda, H. and van der Vet, P.E. and Breit, T.M. and Nijholt, A. (2008) E-BioFlow: Different Perspectives on Scientific Workflows. In: Bioinformatics Research and Development, BIRD 2008, 07-09 Jul 2008, Vienna, Austria. pp. 243-257. Communications in Computer and Information Science 13 (XXI). Springer Verlag. ISSN 1865-0929 ISBN 978-3-540-70598-7

2007

Fikkert, F.W. (2007) Human Computing in the Life Sciences: What does the future hold? I/O Vivat, 22 (2). pp. 25-27. ISSN 1389-0468
Fikkert, F.W. (2007) Gesture Interfaces. I/O Vivat, 23 (extra). pp. 36-39. ISSN 1389-0468
Fikkert, F.W. and D'Ambros, M. and Bierz, T. and Jankun-Kelly, T.J. (2007) Interacting with Visualizations. In: Human-Centered Visualization Environments. Lecture Notes in Computer Science 4417. Springer Verlag, London, pp. 77-162. ISSN 0302-9743 ISBN 978-3-540-71948-9
Kulyk, O. and van Dijk, E.M.A.G. and van der Vet, P.E. and Nijholt, A. (2007) Do you know what I know? Situational Awareness and Scientific Teamwork in Collaborative Environments. In: Social Intelligence Design 2007. Proceedings Sixth Workshop on Social Intelligence Design, 2-4 July 2007, Trento, Italy. pp. 207-215. CTIT Workshop Proceedings Series WP07-02. Centre for Telematics and Information Technology University of Twente. ISSN 1574-0846
Kulyk, O. and Kosara, R. and Urquiza, J. and Wassink, I. (2007) Human-Centered Aspects. In: Human-Centered Visualization Environments. Lecture Notes in Computer Science Tutorial 4417. Springer Verlag, Berlin, pp. 13-75. ISSN 0302-9743 ISBN 978-3-540-71948-9
Schuemie, M. and Trieschnigg, R.B. and Kraaij, W. (2007) Cross Language Information Retrieval for Biomedical Literature. In: The Sixteenth Text REtrieval Conference (TREC 2007) Proceedings, 6-9 Nov 2007, Gaithersburg, USA. NIST. ISBN not assigned
Trieschnigg, R.B. and Kraaij, W. and de Jong, F.M.G. (2007) The Influence of Basic Tokenization on Biomedical Document Retrieval. In: Proceedings of the 30th annual international ACM SIGIR conference on Research and development in information retrieval, 23-27 Jul 2007, Amsterdam. pp. 803-804. ACM Press. ISBN 978-1-59593-597-7
van der Vet, P.E. and Kulyk, O. and Wassink, I. and Fikkert, F.W. and Rauwerda, H. and van Dijk, E.M.A.G. and van der Veer, G.C. and Breit, T.M. and Nijholt, A. (2007) Smart Environments for Collaborative Design, Implementation, and Interpretation of Scientific Experiments. In: Workshop on AI for Human Computing (AI4HC), 6 Jan 2007, Hyderabad, India. pp. 79-86. International Joint Conference on Artificial Intelligence 20. Centre for Telematics and Information Technology University of Twente. ISBN not assigned

2006

de Jong, F.M.G. and Kraaij, W., ed. (2006) Proceedings of the 6th Dutch-Belgian Information Retrieval Workshop. Neslia Paniculata, Enschede. ISBN 978-90-75296-14-3
Fikkert, F.W. and Heylen, D.K.J. and van Dijk, E.M.A.G. and Nijholt, A. and Kuipers, J. and Brugman, A. (2006) Estimating the Gaze Point of a Student in a Driving Simulator. In: International Conference on Advanced Learning Technologies (ICALT) - Technologies for Life-Long Learning, 5-7 July 2006, Kerkrade, The Netherlands. pp. 497-501. IEEE Computer Society. ISBN 0-7695-2632-2
de Jong, F.M.G. (2006) From media crossing to media mining. (Invited) In: Proceedings of LREC 2006 Satellite Workshop on Crossing Media for Improved Information Access, May 2006, Genoa. pp. 50-57. LREC. ISBN not assigned
Kraaij, W. and de Jong, F.M.G. (2006) The sixth Dutch-Belgian Information Retrieval workshop (DIR 2006). ACM SIGIR Forum, 40 (2). 3. ISSN 0163-5840
Kulyk, O. and Wang, Jimmy and Terken, J. (2006) Real-Time Feedback Based on Nonverbal Behaviour to Enhance Social Dynamics in Small Group Meetings. In: Second International Workshop, MLMI 2005, 11-13 July 2005, Edinburgh, U.K.. pp. 150-161. Lecture Notes in Computer Science 3869. Springer Verlag. ISBN 978-3-540-32549-9
Trieschnigg, R.B. and Kraaij, W. and Schuemie, M. (2006) Concept based document retrieval for genomics literature. In: The Fifteenth Text REtrieval Conference (TREC 2006) Proceedings, 14-17 Nov 2006, Gaithersburg, USA. 453. NIST. ISBN not assigned
Wassink, I. and van Dijk, E.M.A.G. and Zwiers, J. and Nijholt, A. and Kuipers, J. and Brugman, A. (2006) In The Truman Show: Generating Dynamic Scenarios in a Driving Simulator. IEEE Intelligent Systems, 21 (6). pp. 28-32. ISSN 1541-1672 *** ISI Impact 3,532 ***

2005

Fikkert, F.W. (2005) Estimating the Gaze Point of a Student in a Driving Simulator. Master's thesis, University of Twente.
de Jong, F.M.G. (2005) Het is tijd voor ontGoogling. Automatisering Gids, 39 (23). 17. ISSN 0165-4683
Malchanau, A.V. and Nijholt, A. and Roosendaal, H.E. (2005) Visualisation of the information resources for cell biology. In: Proceedings ICMI 2005 Workshop on Multimodal Interaction for the Visualization and Exploration of Scientific Data, 3 October 2005, Trento, Italy. pp. 57-60. ITC/irst. ISBN not assigned

2003

Malchanau, A.V. and van der Vet, P.E. and Roosendaal, H.E. (2003) Federating resources of information systems: browsing interface (FRISBI). In: Conferentie Informatiewetenschap 2003, 03-Nov-2003, Eindhoven. pp. 85-90. Computing Science Reports. Technical University of Eindhoven. ISSN 0926-4515