Staff – University of Copenhagen

Rasmus Fonseca

Rasmus Fonseca

International Researcher

  • Algorithms and Programming Languages (APL)

    Sigurdsgade 41

    2200 København N

Member of:

  • The APL Section


  1. 2018
  2. Published

    Driving Structural Transitions in Molecular Simulations Using the Nonequilibrium Candidate Monte Carlo. / Kurut, Anil; Fonseca, Rasmus; Boomsma, Wouter.

    In: Journal of Physical Chemistry Part B: Condensed Matter, Materials, Surfaces, Interfaces & Biophysical, Vol. 122, No. 3, 25.01.2018, p. 1195-1204.

    Research output: Contribution to journalJournal articleResearchpeer-review

  3. 2017
  4. Frustration-guided motion planning reveals conformational transitions in proteins. / Budday, Dominik; Fonseca, Rasmus; Leyendecker, Sigrid; van den Bedem, Henry.

    In: Proteins: Structure, Function, and Bioinformatics, 2017.

    Research output: Contribution to journalJournal articleResearchpeer-review

  5. Fast, clash-free RNA conformational morphing using molecular junctions. / Héliou, Amélie; Budday, Dominik; Fonseca, Rasmus; van den Bedem, Henry.

    In: Bioinformatics, Vol. 33, No. 14, 15.07.2017, p. 2114-2122.

    Research output: Contribution to journalJournal articleResearchpeer-review

  6. 2016
  7. Published

    Probing RNA native conformational ensembles with structural constraints. / Fonseca, Rasmus; van den Bedem, Henry; Bernauer, Julie.

    In: Journal of Computational Biology, Vol. 23, No. 5, 2016, p. 362-371.

    Research output: Contribution to journalJournal articleResearchpeer-review

  8. 2015
  9. Published

    KGSrna : efficient 3D kinematics-based sampling for nucleic acids. / Fonseca, Rasmus; van den Bedem, Henry; Bernauer, Julie.

    Research in Computational Molecular Biology: 19th Annual International Conference, RECOMB 2015, Warsaw, Poland, April 12-15, 2015, Proceedings. ed. / Teresa Przytycka. Springer, 2015. p. 80-95.

    Research output: Chapter in Book/Report/Conference proceedingArticle in proceedingsResearchpeer-review

  10. Published

    Alpha complexes in protein structure prediction. / Winter, Pawel; Fonseca, Rasmus.

    Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. SCITEPRESS (Science and Technology Publications, Lda.), 2015. p. 178-182.

    Research output: Chapter in Book/Report/Conference proceedingArticle in proceedingsResearchpeer-review

  11. 2014
  12. Published

    Steiner tree heuristics in Euclidean d-space. / E. Olsen, Andreas; Lorenzen, Stephan Sloth; Fonseca, Rasmus; Winter, Pawel.

    2014. Paper presented at 11th DIMACS Implementation Challenge, Providence, United States.

    Research output: Contribution to conferencePaperResearch

  13. Published

    Characterizing RNA ensembles from NMR data with kinematic models. / Fonseca, Rasmus; Pachov, Dimitar V.; Bernauer, Julie; van den Bedem, Henry.

    In: Nucleic Acids Research, Vol. 42, No. 15, 2014, p. 9562-9572.

    Research output: Contribution to journalJournal articleResearchpeer-review

  14. Published

    Faster exact algorithms for computing Steiner trees in higher dimensional Euclidean spaces. / Fonseca, Rasmus; Brazil, Marcus; Winter, Pawel; Zachariasen, Martin.

    2014. Paper presented at 11th DIMACS Implementation Challenge, Providence, United States.

    Research output: Contribution to conferencePaperResearch

  15. 2012
  16. Published

    Bounding volumes for proteins : a comparative study. / Fonseca, Rasmus; Winter, Pawel.

    In: Journal of Computational Biology, Vol. 19, No. 10, 2012, p. 1203-1213.

    Research output: Contribution to journalJournal articleResearchpeer-review

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