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JCB
2007
108views more  JCB 2007»
13 years 4 months ago
A Dynamic Programming Approach for Finding Common Patterns in RNAs
We developed a dynamic programming approach of computing common sequence structure patterns among two RNAs given their primary sequences and their secondary structures. Common pat...
Sven Siebert, Rolf Backofen
WABI
2007
Springer
102views Bioinformatics» more  WABI 2007»
13 years 10 months ago
Homology Search with Fragmented Nucleic Acid Sequence Patterns
The comprehensive annotation of non-coding RNAs in newly sequenced genomes is still a largely unsolved problem because many functional RNAs exhibit not only poorly conserved sequen...
Axel Mosig, Julian J.-L. Chen, Peter F. Stadler
BMCBI
2002
108views more  BMCBI 2002»
13 years 4 months ago
A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure
Background: Covariance models (CMs) are probabilistic models of RNA secondary structure, analogous to profile hidden Markov models of linear sequence. The dynamic programming algo...
Sean R. Eddy
IPPS
2007
IEEE
13 years 10 months ago
A Multi-Level Parallel Implementation of a Program for Finding Frequent Patterns in a Large Sparse Graph
Graphs capture the essential elements of many problems broadly defined as searching or categorizing. With the rapid increase of data volumes from sensors, many application discipl...
Steve Reinhardt, George Karypis
CBSE
2008
Springer
13 years 6 months ago
A Practical Approach for Finding Stale References in a Dynamic Service Platform
The OSGiTM Service Platform is becoming the de facto standard for modularized Java applications. The market of OSGi based COTS components is continuously growing. OSGi specific pro...
Kiev Gama, Didier Donsez