Name
Title | ||
|---|---|---|
MetaExploArrays: A Large-Scale Oligonucleotide Probe Design Software for Explorative DNA Microarrays |
Abstract | ||
|---|---|---|
The selection of oligonucleotide probes for micro arrays is still very difficult task. With the rapid growth of environmental databases (metagenomics programs coupled to next generation sequencing), the computational capacity requirements of probe design algorithms have hugely increased. The use of parallel and distributed architectures can considerably reduce the complexity and the computational time of these algorithms. In this paper we present a new efficient algorithm of oligonucleotide probe selection for an individual specific nucleic acid sequence or a group of sequences. We used a model driven engineering approach to simultaneous design of thousands of sensitive, specific, isothermal and explorative probes, on both PC, multiprocessor, cluster and grid computing with on the one hand a significant computing speedup and on the other hand an improved quality of the resulting probes when compared to equivalent software. |
Year | DOI | Venue |
|---|---|---|
2012 | 10.1109/PDCAT.2012.94 | PDCAT |
Keywords | Field | DocType |
DNA,biology computing,grid computing,lab-on-a-chip,software architecture,MetaExploArrays,PC,cluster,computational complexity,distributed architectures,environmental databases,explorative DNA microarrays,explorative probes,grid computing,isothermal probes,large-scale oligonucleotide probe design software,model driven engineering approach,multiprocessor,nucleic acid sequence,oligonucleotide probe selection,parallel architectures,complex environments,explorative probes,meta-programming,model driven engineering,oligonucleotide probe design,parallelization,thermodynamic | Grid computing,Model-driven architecture,Computer science,Multiprocessing,Oligonucleotide,Software,Software architecture,Oligomer restriction,Distributed computing,Speedup | Conference |
Citations | PageRank | References |
1 | 0.37 | 0 |
Authors | ||
7 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Faouzi Jaziri | 1 | 5 | 3.53 |
| David R C Hill | 2 | 161 | 24.15 |
| Nicolas Parisot | 3 | 4 | 1.51 |
| Jeremie Denonfoux | 4 | 4 | 1.17 |
| Eric Dugat-Bony | 5 | 20 | 1.81 |
| Eric Peyretaillade | 6 | 31 | 4.01 |
| Pierre Peyret | 7 | 50 | 6.26 |