Stefan Janssen, M.Sc.

Research Interests

• RNA secondary structure analysis
• Algebraic Dynamic Programming
• Functional programming, Haskell

Short Vita

• 1983: Born in Krefeld, Germany
• 2002: Abitur
• 2003: civilian service
• 2003-2006: Study of Bioinformatics and Genome Research (Bachelor of Science), Bielefeld University
• 2006-2008: Study of Bioinformatics and Genome Research (Master of Science), Bielefeld University
• 2008-today: Member of Practical Computer Science, Bielefeld University (Robert Giegerich)

Projects

• Shape based indexing for faster search of RNA family databases.
  • RNAsifter at BiBiServ
  • Bachelor thesis (German)
  • Conference Talk "Non-Coding RNA 2008" (Antalya)
  • ISMB Poster 2007
• A runtime heuristic for faster probabilistic anaysis of RNA abstract shapes
  • RapidShapes at BiBiServ
  • Master's thesis (German)
  • Paper BREW 2009
• Predicting RNA kissing hairpin motifs
• pKiss at BiBiServ
• RNA sonification
• Example interactions with the RNA folding browser

Publications

Supervised theses

• Generative Erweiterungen des Bellman's-GAP-Compilers [Extensions to Bellman's GAP compiler] (Diploma thesis Marco Rüther)
• Vergleich von vier Programmen zur Vorhersage von RNA-Strukturen mit Pseudoknoten [comparing for pseudoknot aware RNA structure prediction programs] (B.Sc. thesis Sonja Klingberg)
• Kalibrierung von thermodynamischen Matchern [calibrating thermodynamic matchers] (B.Sc. thesis Britta Niemann)
• Probabilistische Vorhersage von RNA-Schaltern [probabilistic prediction of RNA switches] (B.Sc. thesis Sarah Woltmann)
• Prediction of Group I Introns under structure variation (M.Sc. thesis Armin Töpfer)
• Algorithmic ideas for efficient prediction of RNA secondary structures including Kissing Hairpin Motifs (M.Sc. thesis Corinna Theis)

Address

• Room:
  M3-114
  
  
• Phone:
  +49 (0)521 106-2903
  
  
• E-Mail:
  sjanssen(at)techfak.uni-bielefeld.de
  
  
• Postal Adress:
  Stefan Janssen
  Universität Bielefeld
  Technische Fakultät
  AG Praktische Informatik
  33594 Bielefeld