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» Declarative Querying for Biological Sequences
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ISMB
1996
13 years 9 months ago
Compact Encoding Strategies for DNA Sequence Similarity Search
Determining whether two DNA sequences are similar is an essential component of DNA sequence analysis. Dynamic programming is the algorithm of choice if computational time is not t...
David J. States, Pankaj Agarwal
AAAI
2007
13 years 10 months ago
AURA: Enabling Subject Matter Experts to Construct Declarative Knowledge Bases from Science Textbooks
The long-term goal of Project Halo is to build an application called Digital Aristotle that can answer questions on a variety of science topics and provide user and domain appropr...
Ken Barker, Vinay K. Chaudhri, Shaw Yi Chaw, Peter...
BMCBI
2008
226views more  BMCBI 2008»
13 years 7 months ago
ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining
Background: New systems biology studies require researchers to understand how interplay among myriads of biomolecular entities is orchestrated in order to achieve high-level cellu...
Tianxiao Huan, Andrey Y. Sivachenko, Scott H. Harr...
SIGMOD
2004
ACM
109views Database» more  SIGMOD 2004»
14 years 7 months ago
Piers: An Efficient Model for Similarity Search in DNA Sequence Databases
Growing interest in genomic research has resulted in the creation of huge biological sequence databases. In this paper, we present a hash-based pier model for efficient homology s...
Xia Cao, Shuai Cheng Li, Beng Chin Ooi, Anthony K....
CONSTRAINTS
2008
95views more  CONSTRAINTS 2008»
13 years 7 months ago
Efficient Sequence Alignment with Side-Constraints by Cluster Tree Elimination
Aligning DNA and protein sequences is a core technique in molecular biology. Often, it is desirable to include partial prior knowledge and conditions in an alignment. Going beyond...
Sebastian Will, Anke Busch, Rolf Backofen