MetaExploArrays: a large-scale oligonucleotide probe design software for explorative DNA microarrays - Archive ouverte HAL Accéder directement au contenu
Communication Dans Un Congrès Année : 2012

MetaExploArrays: a large-scale oligonucleotide probe design software for explorative DNA microarrays

Faouzi Jaziri
  • Fonction : Auteur
  • PersonId : 768496
  • IdRef : 191451274
David R.C. Hill
Nicolas Parisot
Eric Dugat-Bony

Résumé

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.
Fichier non déposé

Dates et versions

hal-01393662 , version 1 (07-11-2016)

Identifiants

Citer

Faouzi Jaziri, David R.C. Hill, Nicolas Parisot, Jeremie Denonfoux, Eric Dugat-Bony, et al.. MetaExploArrays: a large-scale oligonucleotide probe design software for explorative DNA microarrays. 13. International Conference on Parallel and Distributed Computing, Applications and Technologies, Dec 2012, Bejing, China. ⟨10.1109/PDCAT.2012.94⟩. ⟨hal-01393662⟩

Collections

PRES_CLERMONT
22 Consultations
0 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More