RNA structure

Projects related to RNA splicing and folding

• MAASE database
  • Automated classification of splicing isoforms (article pending Gribskov 11:30, 2 June 2007 (EDT))
• Mining for alternative splicing signals (article pending Gribskov 11:30, 2 June 2007 (EDT))
• graph theoretical approaches to the greatest common RNA structure problem (AKA RNA structure match)

RNA Resources

• RNAML Standard syntax of RNA information
• RNA Society Many references to RNA structure related databases and software
• RNA World Many references to RNA structure related databases and software (seems to be falling out of date, but still useful)

References

• Ivo L. Hofacker, A Statistical Characterization of the Sequence to Structure Mapping in RNA, thesis, 1994. PDF
  best reference on internals of Vienna RNA package
• Ivo L. Hofacker, Walter Fontana, Peter F. Stadler, Sebastian Bonhoeffer, Manfred Tacker, and Peter Schuster. Fast folding and comparison of RNA secondary structures (the Vienna RNA Package). Monatsh. Chem., 125(2):167–188, 1994. PDF
  briefer reference that gives some of the Vienna RNA pseudocode