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» Databases and Algorithms for Pathway Bioinformatics
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77
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VLDB
1999
ACM
89views Database» more  VLDB 1999»
15 years 1 months ago
Physical Data Independence, Constraints, and Optimization with Universal Plans
We present an optimization method and algorithm designed for three objectives: physical data independence, semantic optimization, and generalized tableau minimization. The method ...
Alin Deutsch, Lucian Popa, Val Tannen
92
Voted
BIBE
2005
IEEE
126views Bioinformatics» more  BIBE 2005»
15 years 3 months ago
Highly Scalable and Accurate Seeds for Subsequence Alignment
We propose a method for finding seeds for the local alignment of two nucleotide sequences. Our method uses randomized algorithms to find approximate seeds. We present a dynamic ...
Abhijit Pol, Tamer Kahveci
BMCBI
2007
233views more  BMCBI 2007»
14 years 9 months ago
160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA)
Background: To infer homology and subsequently gene function, the Smith-Waterman (SW) algorithm is used to find the optimal local alignment between two sequences. When searching s...
Isaac T. S. Li, Warren Shum, Kevin Truong
ICDM
2009
IEEE
137views Data Mining» more  ICDM 2009»
15 years 4 months ago
A Local Scalable Distributed Expectation Maximization Algorithm for Large Peer-to-Peer Networks
This paper offers a local distributed algorithm for expectation maximization in large peer-to-peer environments. The algorithm can be used for a variety of well-known data mining...
Kanishka Bhaduri, Ashok N. Srivastava
88
Voted
CIKM
2006
Springer
15 years 1 months ago
TRIPS and TIDES: new algorithms for tree mining
Recent research in data mining has progressed from mining frequent itemsets to more general and structured patterns like trees and graphs. In this paper, we address the problem of...
Shirish Tatikonda, Srinivasan Parthasarathy, Tahsi...