http://www.cnr.it/ontology/cnr/individuo/prodotto/ID293732

Parallelizing the execution of native data mining algorithms for computational biology (Articolo in rivista)

Type

Articolo in rivista (Classe)
Prodotto della ricerca (Classe)

Label

Parallelizing the execution of native data mining algorithms for computational biology (Articolo in rivista) (literal)

Anno

2014-01-01T00:00:00+01:00 (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#doi

10.1002/cpe.3435 (literal)

Alternative label

Coro G., Candela L., Pagano P., Italiano A., Liccardo L. (2014)
Parallelizing the execution of native data mining algorithms for computational biology
in Concurrency and computation (Online); John Wiley & Sons Ltd., Chichester (Regno Unito)
(literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#autori

Coro G., Candela L., Pagano P., Italiano A., Liccardo L. (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#altreInformazioni

Grant agreement:283644 Tipo Progetto:EU_FP7 (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#url

http://onlinelibrary.wiley.com/doi/10.1002/cpe.3435/abstract (literal)

Rivista

Concurrency and computation (Rivista)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#pagineTotali

15 (literal)

Note

PuMa (literal)

Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#affiliazioni

CNR-ISTI, Pisa, Italy; CNR-ISTI, Pisa, Italy; CNR-ISTI, Pisa, Italy; CNR-ISTI, Pisa, Italy; CNR-ISTI, Pisa, Italy (literal)

Titolo

Parallelizing the execution of native data mining algorithms for computational biology (literal)

Abstract

Data mining, Parallel processing, Cloud computing, Computational biology, Distributed systems, R prototyping language (literal)
Data mining is being increasingly used in biology. Biologists are adopting prototyping languages, like R and Matlab, to facilitate the application of data mining algorithms to their data. As a result, their scripts are becoming increasingly complex and also require frequent updates. Application to large datasets becomes impractical and the time-to-paper increases. Furthermore, even if there are various systems that can be used to efficiently process large datasets, for example, using Cloud and High Performance Computing, they usually require procedures to be translated into specific languages or to be adapted to a certain computing platform. Such modifications can speed up the processing, but translation is not automatic, especially in complex cases, and can require a large amount of programming effort and accurate validation. In this paper, we propose an approach to parallelize data mining procedures in the form of compiled software or R scripts developed by biology communities of practice. Our approach requires minimal alteration of the original code. In many cases, there is no need for code modification. Furthermore, it allows for fast updating when a new version is ready. We clarify the constraints and the benefits of our method and report a practical use case to demonstrate such benefits compared with a standard execution. Our approach relies on a distributed network of web services and ultimately exposes the algorithms as-a-Service, to be invoked by remote thin clients. (literal)

Editore