jaffe@tove.cs.umd.edu (Laura Jaffe) (06/13/91)
I am a graduate student in computer science working on my master's thesis this summer. My project is to objectively compare various computer algorithms for determining the secondary structure of RNA molecules. In order to evaluate the various algorithms, I am collecting a large database of "known" RNA secondary structures. I have already located a source for 16S rRNA molecules. I understand that the Berlin Databank contains some 5S rRNA sequences, however I do not know how to access this databank. Any help on accessing the Berlin Databank, as well as additional sources of RNA sequences with known secondary structures would be appreciated. Also, I have implemented several folding algorithms myself, and I would also like to include the results on my database of any existing implementations of RNA folding algorithms. If you know where I can obtain the source code for such implementations, I would be very appreciative of your assistance. Any additional comments or suggestions are welcome. Laura Jaffe, tove@cs.umd.edu