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IPPS
2002
IEEE
13 years 10 months ago
Massively Parallel Solutions for Molecular Sequence Analysis
In this paper we present new approaches to high performance protein database scanning on two novel massively parallel architectures to gain supercomputer power at low cost. The ï¬...
Bertil Schmidt, Heiko Schröder, Manfred Schim...
IPPS
2006
IEEE
13 years 11 months ago
FPGA based architecture for DNA sequence comparison and database search
DNA sequence comparison is a computationally intensive problem, known widely since the competition for human DNA decryption. Database search for DNA sequence comparison is of grea...
Euripides Sotiriades, Christos Kozanitis, Apostolo...
BMCBI
2007
164views more  BMCBI 2007»
13 years 5 months ago
The Personal Sequence Database: a suite of tools to create and maintain web-accessible sequence databases
Background: Large molecular sequence databases are fundamental resources for modern bioscientists. Whether for project-specific purposes or sharing data with colleagues, it is oft...
Scott A. Givan, Christopher M. Sullivan, James C. ...
CPHYSICS
2008
106views more  CPHYSICS 2008»
13 years 5 months ago
A space-time-ensemble parallel nudged elastic band algorithm for molecular kinetics simulation
A scalable parallel algorithm has been designed to study long-time dynamics of many-atom systems based on the nudged elastic band method, which performs mutually constrained molec...
Aiichiro Nakano
HPDC
2006
IEEE
13 years 11 months ago
Exploring I/O Strategies for Parallel Sequence-Search Tools with S3aSim
Parallel sequence-search tools are rising in popularity among computational biologists. With the rapid growth of sequence databases, database segmentation is the trend of the futu...
Avery Ching, Wu-chun Feng, Heshan Lin, Xiaosong Ma...