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» The complexity of stochastic sequences
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BMCBI
2011
13 years 5 months ago
Multithreaded comparative RNA secondary structure prediction using stochastic context-free grammars
Background: The prediction of the structure of large RNAs remains a particular challenge in bioinformatics, due to the computational complexity and low levels of accuracy of state...
Zsuzsanna Sukosd, Bjarne Knudsen, Morten Vaerum, J...
SIGMOD
2005
ACM
77views Database» more  SIGMOD 2005»
14 years 11 months ago
On Joining and Caching Stochastic Streams
We consider the problem of joining data streams using limited cache memory, with the goal of producing as many result tuples as possible from the cache. Many cache replacement heu...
Jun Yang 0001, Junyi Xie, Yuguo Chen
BMCBI
2006
129views more  BMCBI 2006»
13 years 11 months ago
BIPAD: A web server for modeling bipartite sequence elements
Background: Many dimeric protein complexes bind cooperatively to families of bipartite nucleic acid sequence elements, which consist of pairs of conserved half-site sequences sepa...
Chengpeng Bi, Peter K. Rogan
ISAAC
2009
Springer
169views Algorithms» more  ISAAC 2009»
14 years 5 months ago
The Complexity of Solving Stochastic Games on Graphs
We consider some well-known families of two-player zero-sum perfect-information stochastic games played on finite directed graphs. Generalizing and unifying results of Liggett and...
Daniel Andersson, Peter Bro Miltersen
BMCBI
2010
185views more  BMCBI 2010»
13 years 5 months ago
MetaPIGA v2.0: maximum likelihood large phylogeny estimation using the metapopulation genetic algorithm and other stochastic heu
Background: The development, in the last decade, of stochastic heuristics implemented in robust application softwares has made large phylogeny inference a key step in most compara...
Raphaël Helaers, Michel C. Milinkovitch