Janssen, Stefan ; Reeder, Jens; Giegerich, Robert: Shape based indexing for faster search of RNA family databases. In: BMC Bioinformatics. Jg.9 H. 1. 2008, S. 131 ff.
Inhalt
- Searching with covariance models
- Methods
- Shape-based indexing framework
- Shape index construction
- 1-SS cons-shape-index: fss(f) = {p(SS_cons)}
- 1-consensus-shape-index: fss(f) = rankmin{>
- 1-hybrid-shape-index
- union-shape-index: fss(f) = {p(RNAfold_
- k-best-shape-index: fss(f) = [
- Query shape spectrum construction
- Using multi-level abstraction
- Using folding energies
- Omitting "difficult" families
- Algorithm
- Results and Discussion
- Conclusion
- Authors' contributions
- Additional material
- Acknowledgements
- References