Webservers and Databases

  • RNA Junction Database: A database of RNA structural elements including junctions, kissing loops, and bulges.
  • RiboSketch: Multi-stranded molecule drawing web server and downlad links.
  • CyloFold: Single sequence RNA secondary structure prediction, including pseudoknots.
  • rnashape: Normalization of RNA SHAPE experiment data.
  • KNetFold: RNA secondary structure prediction from a sequence alignment. It uses compensatory base change information as well as energetic considerations to compute a structure. This algorithm is capable of predicting pseudoknots.
  • CorreLogo: Detects correlated mutations in RNA and DNA sequence alignments. It generates what we call a "3D sequence logo." This is an extension of the "sequence logo" concept.