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IPPS
1999
IEEE
14 years 1 months ago
Parallel Biological Sequence Comparison Using Prefix Computations
We present practical parallel algorithms using prefix computations for various problems that arise in pairwise comparison of biological sequences. We consider both constant and af...
Srinivas Aluru, Natsuhiko Futamura, Kishan Mehrotr...
ISBRA
2009
Springer
14 years 3 months ago
Prediction of Contiguous Regions in the Amniote Ancestral Genome
Abstract. We investigate the problem of inferring contiguous ancestral regions (CARs) of the genome of the last common ancestor of all extant amniotes, based on the currently seque...
Aïda Ouangraoua, Frédéric Boyer...
BMCBI
2011
13 years 13 days ago
Improving pan-genome annotation using whole genome multiple alignment
Background: Rapid annotation and comparisons of genomes from multiple isolates (pan-genomes) is becoming commonplace due to advances in sequencing technology. Genome annotations c...
Samuel V. Angiuoli, Julie C. Dunning Hotopp, Steve...
IPPS
2002
IEEE
14 years 1 months ago
Aligning Two Fragmented Sequences
Upon completion of the human and mouse genome sequences, world-wide sequencing capacity will turn to other complex organisms. Current strategies call for many of these genomes to ...
Vamsi Veeramachaneni, Piotr Berman, Webb Miller
IPPS
2008
IEEE
14 years 3 months ago
Financial modeling on the cell broadband engine
High performance computing is critical for financial markets where analysts seek to accelerate complex optimizations such as pricing engines to maintain a competitive edge. In th...
Virat Agarwal, Lurng-Kuo Liu, David A. Bader