Students - Christian Nørgaard Storm Pedersen

Current Students

PhD Students

  1. Dan Søndergaard
    Working on machine learning methods for protein classification focusing on P-Type ATPases.
  2. Jade Yu Cheng (co-supervised with Thomas Mailund as main supervisor)
    Working population history inference.

MSc Students

  1. Lars Christensen. Handin 5/8/2016. Exam scheduled for 17/8/2016.

Former Students

PhD students

  1. Paula Tataru, Ph.D. student, Bioinformatics Research Center, Aarhus University. PhD Thesis Inference of population history and patterns from molecular data defended on January 23, 2015. Part-A report Development of statistical theory and algorithms for analyzing molecular data defended on Oct 10, 2012. (Co-supervised by Asger Hobolth with me as main supervisor.)
  2. Vikas Gupta, Ph.D. student, Bioinformatics Research Center and Department of Molecular Biology and Genetics, Aarhus University. PhD Thesis Applied bioinformatics: Genome annotation and transcriptome analysis defended on October 24, 2014. Part-A report Applied Bioinformatics in Lotus japonicus defended on June 13, 2012. (Co-supervised by Stig Uggerhøj Andersen with me as main supervisor.)
  3. Andreas Sand Pedersen, Ph.D. student, Bioinformatics Research Centre and Department of Computer Science, Aarhus University. PhD Thesis Engineering of Algorithms for Hidden Markov Models and Tree Distances defended on September 18, 2014. Part-A report Efficient implementations of algorithms for analyzing biological data, using hidden Markov models and tree data structures defended on June 29, 2012. (Co-supervised by Thomas Mailund with me as main supervisor.)
  4. Zsuzsanna Sükösd, Ph.D. student, Interdisciplinary Nanoscience Center and Bioinformatics Research Center, Aarhus University. PhD Thesis Viral RNA secondary structure prediction defended on November 22, 2013. (Co-supervised with Jørgen Kjems as main supervisor.)
  5. Iwona Siuda, Ph.D. student, Bioinformatics Research Center, Aarhus University. PhD Thesis Modelling Protein Dynamics on the Microsecond Time Scale defended on January 28, 2013. Part-A report Coarse Grained Molecular Dynamics with Domain Movements of Large Proteins defended on December 16, 2010. (Co-supervised by Lea Thøgersen with me as main supervisor.)
  6. Martin Simonsen, Ph.D. student, Bioinformatics Research Centre and Department of Computer Science, Aarhus University. PhD Thesis Efficient Algorithms for Tree Reconstruction and Prediction of Molecular Interactions defended on December 9, 2011. Part-A report Computationally Efficient Algorithms in Bioinformatics using Contemporary Hardware defended on March 25, 2010.
  7. Jesper Nielsen, Ph.D. student, Bioinformatics Research Centre and Department of Computer Science, Aarhus University. PhD Thesis Engineering Algorithms for Finding Patterns in Biological Data defended on October 28, 2011. Part-A report Finding Patterns in Biological and Molecular Data (see also appendix with papers) defended on July 8, 2009.
  8. Thomas Greve Kristensen, Ph.D. student, Bioinformatics Research Centre and Department of Computer Science, Aarhus University. PhD Thesis Virtual Screening Algorithms defended on June 16, 2011. Part-A report Virtual Screening, Docking and Tree Comparison Methods defended on January 30, 2009.
  9. Peter Justesen, Ph.D. student, Department of Computer Science, Aarhus University. PhD Thesis Distinct Candidates Optimization: A Novel Approach to Applied Evolutionary Multi- and Many-Objective Optimization defended on September 27, 2010. Part-A report Multi-objective Optimization using Evolutionary Algorithms defended on January 30, 2009. Co-supervised with Rasmus Kjær Ursem, Grundfos.
  10. Søren Besenbacher, Ph.D. student, Department of Computer Science, University of Aarhus. PhD Thesis Challenges in whole-genome association mapping defended on October 31, 2008. Part-A report. Computational problems in genomics and proteomics defended on June 8, 2006.
  11. Jakob Vesterstrøm, Ph.D. student, Department of Computer Science, University of Aarhus. PhD Thesis Heuristics in Bioinformatics defended on March 10, 2006 (slides).

Master Students

  1. Nikolaj Skipper Rasmussen, Department of Computer Science, Aarhus University, Thesis Algorithms for Computing Maximum Agreement Subtrees defended on June 23, 2016.
  2. Thomas Hedegaard Lange, Department of Computer Science, Aarhus University, Thesis Algorithms for Computing Maximum Agreement Subtrees defended on June 23, 2016.
  3. Andreas Winther Lykke, Department of Computer Science, Aarhus University, Thesis Predicting Cocaine Relations using Machine Learning Techniques defended on June 23, 2016.
  4. Heidi Mavengere, Bioinformatics Research Center, Aarhus University. Thesis A survey of five commonly used binary classification algorithms defended on June 23, 2016. (Co-supervised with main supervisor Kasper Munch Terkelsen.)
  5. Casper Christensen, Department of Computer Science, Aarhus University, Thesis Implementing an algorithm for finding minimal forbidden words defended on May 18, 2016.
  6. Carina Tangsgaard, Bioinformatics Research Center, Aarhus University. Thesis Samarbejder i bioinformatik defended on Sep 24, 2015. (Co-supervised with Kristian Hvidtfelt Nielsen, Center for Science Studies.)
  7. Anders Høst Mikkelsen, Department of Computer Science, Aarhus University. Thesis Local alignment using the Four-Russian technique defended on Jun 24, 2015.
  8. Frederik Lønstrup Hansen, Department of Computer Science, Aarhus University. Thesis Speeding up RNA secondary structure prediction defended on Jun 24, 2015.
  9. Torben Muldvang Andersen, Department of Computer Science, Aarhus University. Thesis Speeding up HMM decoding using compression defended on Jun 24, 2015.
  10. Mads Fabricius Schmidt, Department of Computer Science, Aarhus University. Thesis Improving NRPS A-domain classification using self-training defended on Jun 24, 2015.
  11. Lasse Espeholt, Department of Computer Science, Aarhus University. Thesis Neural Networks for Classification of Protein Sequences defended on Dec 11, 2014.
  12. Jens Olaf Svanholm Fogh, Department of Computer Science, Aarhus University. Thesis Pattern Matching using suffix trays, arrays and trees defended on Nov 6, 2014.
  13. Kasper Nielsen, Department of Computer Science, Aarhus University. Thesis Acceleration of Edit-Distance using Compression defended on Jun 23, 2014.
  14. Peter Jessen, Department of Computer Science, Aarhus University. Thesis Methods for prediction of NRPS A-domain specificity defended on May 14, 2014.
  15. Jakob Schultz-Nielsen, Department of Computer Science, Aarhus University. Thesis Implementing a Simulated Directed Acyclic Word Graph for Computing Local Alignment defended on Mar 20, 2014.
  16. Jens-Emil Vejgaard Kristensen, Department of Computer Science, Aarhus University. Thesis Folding RNA 2nd Structure using Stochastic Context Free Grammars defended on Mar 5, 2014.
  17. Morten Schaumburg, M.Sc. student, Department of Computer Science, Aarhus University. Thesis A fully compressed algorithm for computing edit distance defended on Nov 15, 2013.
  18. Thomas Stidsborg Sylvest, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Algorithms for Exact Pattern Matching in Practice defended on May 29, 2013.
  19. Stefan Ravnholt Nielsen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Algorithms for Exact Pattern Matching in Practice defended on May 29, 2013.
  20. Jakob Hundal Sandholm, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Implementing restricted hidden Markov model algorithms for gene prediction defended on Nov 19, 2012.
  21. Daniel Lysdal Kjeldsen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Implementing restricted hidden Markov model algorithms for gene prediction defended on Nov 19, 2012.
  22. Mads Sandberg Brun, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Implementation of MUSCLE using GPU defended on Oct 31, 2012.
  23. Peter Sandberg Brun, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Implementation of MUSCLE using GPU defended on Oct 31, 2012.
  24. Carsten Sørensen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Pladseffektive implementeringer af HMM algoritmer defended on Jun 29, 2012.
  25. Tor Ranfelt, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Implementation af næsten kvadratisk tid convex gapcost sekvensalignment defended on Oct 31, 2011.
  26. Roar Kjær Larsen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Parvis sekvensalignment i sub-kvadratisk tid defended on Oct 31, 2011.
  27. Per Lambæk, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Parallelization of Multiple Sequence Alignment defended on May 11, 2011.
  28. Thomas Klitgaard Andersen, M.Sc. student, Bioinformatics Research Center, Aarhus University. Thesis Calculation of rSPR distance by heuristic algorithms defended on January 27, 2011.
  29. Dung My Hoa, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Speeding-up dynamic programming in sequence alignment defended on December 17, 2010.
  30. Finn Rosenbech Jensen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Using the Travelling Salesman Problem in Bioinformatics Algorithms defended on December 17, 2010.
  31. Anders Kabell Kristensen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Computing the Quartet Distance between General Trees: An Experimental Study of a Sub-Cubic Algorithm defended on November 19, 2010.
  32. Mads Baggesen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Implementation af skjulte Markovmodeller med fokus på tynde modeller defended on June 2, 2010.
  33. Poul Liboriussen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Udvikling af en metode til alignment af hele genomer defended on April 28, 2010.
  34. Steffen Mikkelsen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Udvikling af en metode til alignment af hele genomer defended on April 28, 2010.
  35. Jesper Møjbæk, M.Sc. student, Bioinformatics Research Center, Aarhus University. Thesis Exact Multiple Sequence Alignment using Forward Dynamic Programming defended on March 25, 2010.
  36. Lars Buhl Nielsen, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Algoritmer til at finde eksakte motiver i DNA strenge defended on March 1, 2010. Co-supervised with Thomas Mailund.
  37. Chong Tan, M.Sc. student, Department of Computer Science, Aarhus University. Thesis Financial Time Series Forecasting Using Improved Wavelet Neural Networks defended on July 8, 2009.
  38. Ole Jørgensen, M.Sc, student, Department of Computer Science, Aarhus University. Thesis Logic Regression in Association Mapping defended on May 6, 2009. Co-supervised with Thomas Mailund.
  39. Woody Toke Mejer Jensen, M.Sc, student, Department of Computer Science, Aarhus University. Thesis Forbedring af en "Predictive Text"-algoritme uden inddragelse af viden om sproget defended on May 6, 2009.
  40. Thu Hang Nguyen, M.Sc. student, Bioinformatics Research Center, Aarhus University. Thesis Comparison of Multiple Sequence Alignment Programs in Practise defended on February 17, 2009.
  41. Asbjørn Tølbøl Brask, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Optimering af generelle skjulte Markovmodeller på multikerne CPUer og GPUer defended on October 27, 2008.
  42. Martin Simonsen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Phylogenetic Inference on Cell Processors defended on October 2, 2008.
  43. Benjamin Toft Jakobsen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Deobfuskering af ord i forbindelse med spamfiltrering defended on October 2, 2008.
  44. Bjørn Rohde Jensen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Tree Reconstruction by Maximum Likelihood using Prior Knowledge defended on October 2, 2008.
  45. Per Tøfting, M.Sc.student, Bioinformatics Research Center, University of Aarhus. Thesis Identifikation af potentielle microRNA gener ved hjælp af komparativ genomanalyse defended on September 23, 2008.
  46. Lasse Dahl Ebert, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Sammenligning af tre typer neurale netværks indlæringsmetoder defended on January 17, 2008.
  47. Henry Christensen, M.Sc. student, Bioinformatics Research Center, University of Aarhus. Thesis Langtrækkende korrelationer i DNA-sekvenser defended on October 4, 2007.
  48. Christian Durr Pedersen, M.Sc. student, Bioinformatics Research Center, University of Aarhus. Thesis Parameter Udvælgelse i QSAR - Sammenligning af Tabu Search of Neuronvægte i Kunstige Neurale Netværk defended on June 15, 2007.
  49. Erik Mejer Hansen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Metoder til sammenligning af træer defended on May 31, 2007.
  50. Lars Fabritius de Tengnagel, M.Sc. student, Bioinformatics Research Center, University of Aarhus. Thesis VaccBib - Et evolutionært værktøj hvis funktion er at danne og udvælge sekvenser fra et origin defended on May 25, 2007.
  51. Sune Simonsen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Analyse og implementering af suffikstræer baseret på udvidede suffiksarrays defended on February 27, 2007.
  52. Rasmus Grønbæk, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Identificering af samtlige maksimale kvasiperiodiske delstrenge defended on February 27, 2007.
  53. Steffen Wang Fischer, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Phylogenetic Inference using Genetic Algorithm-based Least Squares Method defended on February 6, 2007.
  54. Mads Peter Lindberg, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Phylogenetic Inference using Genetic Algorithm-based Least Squares Method defended on February 6, 2007.
  55. Ole Lambæk, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Practical Fast Algorithms for Computing Suffix Arrays defended on November 14, 2006.
  56. Thomas Toftkjær, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Practical Fast Algorithms for Computing Suffix Arrays defended on November 14, 2006.
  57. Ionut Radutoiu, M.Sc. student, Bioinformatics Research Center, IT Vest and University of Aarhus. Thesis Comparative approach for identification of microRNAs in Arabidopsis thaliana defended on June 19, 2006.
  58. Martin Randers, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Computing the Quartet Distance between Trees of Arbitrary Degrees defended on February 24, 2006. (slides).
  59. Chris Christiansen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Computing the Quartet Distance between Trees of Arbitrary Degrees defended on February 24, 2006. (slides).
  60. Martin Stig Stissing, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Algorithms for Computing the Quartet Distance defended on February 24, 2006. (slides).
  61. Johannes Dolberg, M.Sc. student, Bioinformatics Research Center, IT Vest and University of Aarhus. Thesis Impact of the Central Limit Theorem on product-based vs. reactant-based virtual screening in accordance to druglikeness and diversity optimization defended on September 5, 2005.
  62. Christopher Mosses, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Triplet Supertrees defended on July 4, 2005.
  63. Mads Laursen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Rekonstruktion af evolutionære træer vha. eksperimenter defended on July 4, 2005.
  64. Casper Lund Thomsen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Rekonstruktion af evolutionære træer vha. eksperimenter defended on July 4, 2005.
  65. Martin Knudsen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Stochastic Context-Free Grammars and RNA Secondary Structure Prediction defended on June 30, 2005.
  66. Anne Dirks Højfeldt, M.Sc. student, Bioinformatics Research Center, IT Vest and University of Aarhus. Thesis Supertræer - En tilgangsvinkel til opbygning af store træer defended on June 21, 2004.
  67. Lasse Westh-Nielsen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Refined Bunemann Trees defended on June 18, 2004.
  68. Niels Christian Bach, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Skjulte Markov Modeller og Genidentifikation defended on January 19, 2004.
  69. Torben Lauritzen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Skjulte Markov Modeller og Genidentifikation defended on January 19, 2004.
  70. Henrik Sandmann, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Maksimale par og suffikstræer defended on January 19, 2004.
  71. Bo Normann Pedersen, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Methods for Handling and Analysis of Gene Expression Data defended on January 27, 2003.
  72. Jan Rise, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Methods for Handling and Analysis of Gene Expression Data defended on January 27, 2003.
  73. Tejs Scharling, M.Sc. student, Department of Computer Science, University of Aarhus. Thesis Gene Identification by Sequence Comparison defended on June 27, 2001.