Name
Title | ||
|---|---|---|
Parallel algorithms for large-scale biological sequence alignment on Xeon-Phi based clusters. |
Abstract | ||
|---|---|---|
Evaluations show that our method achieves a peak overall performance up to 220 GCUPS for scanning real protein sequence databanks on a single node consisting of two Intel E5-2620 CPUs and two Intel Xeon Phi 7110P cards. It also exhibits good scalability in terms of sequence length and size, and number of compute nodes for both database scanning and multiple sequence alignment. Furthermore, the achieved performance is highly competitive in comparison to optimized Xeon Phi and GPU implementations. Our implementation is available at https://github.com/turbo0628/LSDBS-mpi . |
Year | DOI | Venue |
|---|---|---|
2016 | 10.1186/s12859-016-1128-0 | BMC Bioinformatics |
Keywords | Field | DocType |
Dynamic programming,Multiple sequence alignment,Pairwise sequence alignment,Smith-Waterman,Xeon Phi clusters | Sequence alignment,Dynamic programming,Alignment-free sequence analysis,Parallel algorithm,Xeon Phi,Computer science,Software,Computational science,Smith–Waterman algorithm,Bioinformatics,Multiple sequence alignment | Journal |
Volume | Issue | ISSN |
17 | S-9 | 1471-2105 |
Citations | PageRank | References |
7 | 0.44 | 30 |
Authors | ||
6 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Haidong Lan | 1 | 27 | 3.26 |
| Yuandong Chan | 2 | 23 | 3.90 |
| Kai Xu | 3 | 56 | 20.13 |
| Bertil Schmidt | 4 | 699 | 53.00 |
| Shaoliang Peng | 5 | 176 | 32.05 |
| Weiguo Liu | 6 | 91 | 7.15 |