Ole Torp Lassen, Ph.D.
Programming, Logic and Intelligent Systems Group
Computer Science
PLIS, CBIT, Roskilde University
Building 43.2 (10)
P.O. Box 260
DK-4000 Roskilde, Denmark

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Teaching

  • (spring 2010) Project-Supervisor, (the basic studies in Natural Sciences at Roskilde University)
  • (spring 2009) Project-Supervisor, (the international program for basic studies in Natural Sciences at Roskilde University)
  • (spring 2009) Teaching assistant on course DAT-C (IGA), Introduction to Graphics and Animation.

Research

Projects

  • PhD project: Biosequence Analysis in PRISM. My PhD project is supervised by Henning Christiansen. It falls within the larger LoSt project and concerns itself with the ongoing conduct and documentation of a series of explorative experiments with stochastic logic models and problems formulated in the PRISM programming language. The PRISM system is basically BProlog extended with probabilistic variables and builtin tools for probabilistic learning and reasoning. In close collaboration with experts from molecular biology and bioinformatics (Ole Skovgaard and Søren Mørk), I plan to contribute to the overall goal of the LoSt project by designing and documenting experiments with the PRISM system and relevant bio informatical problems of discovering, recognizing and predicting structure in biological sequence data.

Publications

PhD Thesis
Lassen, Ole Torp (2011). Compositionality in probabilistic logic modelling for biological sequence analysis. Roskilde : Roskilde Universitet (Computer Science Research Report; 135).

Journal Papers
Christiansen, H., Have, C. T., Lassen, O. T., & Petit, M. (2010). Inference with constrained hidden Markov models in PRISM. Theory and Practice of Logic Programming, 10(4-6)(p. 449--464).

Conference Papers
Christiansen, H., Have, C. T., Lassen, O. T., & Petit, M. (2011). Bayesian Annotation Networks for Complex Sequence Analysis, Technical Communications of the 27th International Conference on Logic Programming (ICLP'11), LIPIcs, 11, 2011, 220-230, Schloss Dagstuhl.

Christiansen, H., Have, C. T., Lassen, O. T., & Petit, M. (2011). Taming the Zoo of Discrete HMM Subspecies & Some of their Relatives. 1st International Work-Conference on Linguistics, Biology and Computer Science: Interplays. IOS Press.

Christiansen, H., Have, C. T., Lassen, O. T., & Petit, M. (2010). The Viterbi Algorithm expressed in Constraint Handling Rules. 7th International Workshop on Constraint Handling Rules (p. 17).

Christiansen, H., Have, C. T., Lassen, O. T., & Petit, M. (2009). A Constraint Model for Constrained Hidden Markov Models. The proceedings of the 2009 Workshop on Constraintbased Methods in Bioinformatics (p. 19--26).

Christiansen, H., & Lassen, O. T. (2009). Optimization and Evaluation of Probabilistic-Logic Sequence Models. Workshop on statistical and Relational Learning in Bioinformatics (Vol. 5649).

Christiansen, H., & Lassen, O. T. (2009). Preprocessing for optimization of probabilistic-logic models for sequence analysis. Lecture Notes in Computer Science (Vol. 5649, p. 70–83). Springer.

Lassen, O. T. (2008). Biosequence Analysis in PRISM. Lecture Notes in Computer Science (Vol. 5366, p. 809–810). Springer.

Unpublished papers and reports
Lassen, Ole Torp. (2006). "Skimming in comparison". Technical report, DIKU, University of Copenhagen, 2006.

Lassen, Ole Torp. (2006). "Skimming for paragraphs". Technical report, DIKU, University of Copenhagen, 2006.

Lassen, Ole Torp. (2005). "Skimming for context". Master’s thesis, DIKU, University of Copenhagen, 2005.

Attended Conferences and Workshops

  • (July 2011) The International Conference for Logic Programming 2011 (ICLP 2011) in Lexington, KY, USA.
  • (July 2010) The International Conference for Logic Programming 2010 (ICLP 2010) in Edinburgh, Scotland.
  • (July 2009) The International Conference for Logic Programming 2009 (ICLP 2009) in Pasadena, California, USA.
  • (December 2008) Doctoral Consortium of The International Conference for Logic Programming 2008 (ICLP 2008 DC) in Udine, Italy
  • (September 2008) Workshop for Statistical and Relational Learning in Bioinformatics (StReBio 2008) in Antwerben, Begium.
  • (September 2008) European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML PKDD 2008) in Antwerben, Belgium.

Courses and Summer Schools

Activities in the Research Community

  • FQAS 2009 - external referee.
  • PhD-board Member for CBIT (2008-2010), vice chair (2009-2010)
  • RTC-Member of the FIRST PhD School's Research Training Commity (2008-2009). FIRST stands for Foundations for Innovative Research-based Software Technologies, and the research school is a concerted effort of both academia and industry to coordinate and expand a broad series of PhD-training activities within theoretical computer science and fundamental software technologies in the Copenhagen area.

Other Fun stuff

  • Learn about Geocaching - the sport where You are the search engine.