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» Suffix trees for very large genomic sequences
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RECOMB
2010
Springer
15 years 1 months ago
Leveraging Sequence Classification by Taxonomy-Based Multitask Learning
In this work we consider an inference task that biologists are very good at: deciphering biological processes by bringing together knowledge that has been obtained by experiments u...
Christian Widmer, Jose Leiva, Yasemin Altun, Gunna...
BMCBI
2011
14 years 3 months ago
Structator: fast index-based search for RNA sequence-structure patterns
Background: The secondary structure of RNA molecules is intimately related to their function and often more conserved than the sequence. Hence, the important task of searching dat...
Fernando Meyer, Stefan Kurtz, Rolf Backofen, Sebas...
JCB
2000
137views more  JCB 2000»
14 years 11 months ago
NOTUNG: A Program for Dating Gene Duplications and Optimizing Gene Family Trees
Large scale gene duplication is a major force driving the evolution of genetic functional innovation. Whole genome duplications are widely believed to have played an important rol...
Kevin Chen, Dannie Durand, Martin Farach-Colton
SSDBM
2003
IEEE
141views Database» more  SSDBM 2003»
15 years 5 months ago
The ed-tree: An Index for Large DNA Sequence Databases
The growing interest in genomic research has caused an explosive growth in the size of DNA databases making it increasely challenging to perform searches on them. In this paper, w...
Zhenqiang Tan, Xia Cao, Beng Chin Ooi, Anthony K. ...
GECCO
2004
Springer
105views Optimization» more  GECCO 2004»
15 years 5 months ago
An Enhanced Genetic Algorithm for DNA Sequencing by Hybridization with Positive and Negative Errors
Abstract. This paper describes a genetic algorithm for the DNA sequencing problem. The algorithm allows the input spectrum to contain both positive and negative errors as could be ...
Thang Nguyen Bui, Waleed A. Youssef