Grid Based Genome Wide Studies on Atrial Flutter

Andrea Calabria, Davide Di Pasquale, Matteo Gnocchi, Paolo Alessandro Cozzi, Alessandro Orro, Gabriele Antonio Trombetti, Luciano Milanesi

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

The Genetic Linkage Analysis of SNP (Single Nucleotide Polymorphism) markers permits the discovery of genetic correlations in complex diseases following their transmission through family generations. However, all major algorithms proposed in the literature require high computational power and memory availability, making large data sets very hard to analyze on a single CPU. A facility for achieving a Whole-Genome Linkage Analysis has been set up as a web application upon a highly distributed infrastructure: the EGEE Grid. Test cases have been run with 10,000 to one million SNPs per Chip and, after validation, the application has been effectively used for a study on cardiac conduction disorders.

Original languageEnglish
Pages (from-to)511-527
Number of pages17
JournalJournal of Grid Computing
Volume8
Issue number4
DOIs
Publication statusPublished - Apr 2010

Fingerprint

Genes
Nucleotides
Polymorphism
Program processors
Availability
Data storage equipment

Keywords

  • Atrial flutter
  • Distributed computing
  • Grid
  • Linkage analysis

ASJC Scopus subject areas

  • Computer Networks and Communications
  • Hardware and Architecture
  • Information Systems
  • Software

Cite this

Calabria, A., Di Pasquale, D., Gnocchi, M., Cozzi, P. A., Orro, A., Trombetti, G. A., & Milanesi, L. (2010). Grid Based Genome Wide Studies on Atrial Flutter. Journal of Grid Computing, 8(4), 511-527. https://doi.org/10.1007/s10723-010-9163-y

Grid Based Genome Wide Studies on Atrial Flutter. / Calabria, Andrea; Di Pasquale, Davide; Gnocchi, Matteo; Cozzi, Paolo Alessandro; Orro, Alessandro; Trombetti, Gabriele Antonio; Milanesi, Luciano.

In: Journal of Grid Computing, Vol. 8, No. 4, 04.2010, p. 511-527.

Research output: Contribution to journalArticle

Calabria, A, Di Pasquale, D, Gnocchi, M, Cozzi, PA, Orro, A, Trombetti, GA & Milanesi, L 2010, 'Grid Based Genome Wide Studies on Atrial Flutter', Journal of Grid Computing, vol. 8, no. 4, pp. 511-527. https://doi.org/10.1007/s10723-010-9163-y
Calabria A, Di Pasquale D, Gnocchi M, Cozzi PA, Orro A, Trombetti GA et al. Grid Based Genome Wide Studies on Atrial Flutter. Journal of Grid Computing. 2010 Apr;8(4):511-527. https://doi.org/10.1007/s10723-010-9163-y
Calabria, Andrea ; Di Pasquale, Davide ; Gnocchi, Matteo ; Cozzi, Paolo Alessandro ; Orro, Alessandro ; Trombetti, Gabriele Antonio ; Milanesi, Luciano. / Grid Based Genome Wide Studies on Atrial Flutter. In: Journal of Grid Computing. 2010 ; Vol. 8, No. 4. pp. 511-527.
@article{3bd857e6e5614c17b1e00e025a320b3f,
title = "Grid Based Genome Wide Studies on Atrial Flutter",
abstract = "The Genetic Linkage Analysis of SNP (Single Nucleotide Polymorphism) markers permits the discovery of genetic correlations in complex diseases following their transmission through family generations. However, all major algorithms proposed in the literature require high computational power and memory availability, making large data sets very hard to analyze on a single CPU. A facility for achieving a Whole-Genome Linkage Analysis has been set up as a web application upon a highly distributed infrastructure: the EGEE Grid. Test cases have been run with 10,000 to one million SNPs per Chip and, after validation, the application has been effectively used for a study on cardiac conduction disorders.",
keywords = "Atrial flutter, Distributed computing, Grid, Linkage analysis",
author = "Andrea Calabria and {Di Pasquale}, Davide and Matteo Gnocchi and Cozzi, {Paolo Alessandro} and Alessandro Orro and Trombetti, {Gabriele Antonio} and Luciano Milanesi",
year = "2010",
month = "4",
doi = "10.1007/s10723-010-9163-y",
language = "English",
volume = "8",
pages = "511--527",
journal = "Journal of Grid Computing",
issn = "1570-7873",
publisher = "Springer Netherlands",
number = "4",

}

TY - JOUR

T1 - Grid Based Genome Wide Studies on Atrial Flutter

AU - Calabria, Andrea

AU - Di Pasquale, Davide

AU - Gnocchi, Matteo

AU - Cozzi, Paolo Alessandro

AU - Orro, Alessandro

AU - Trombetti, Gabriele Antonio

AU - Milanesi, Luciano

PY - 2010/4

Y1 - 2010/4

N2 - The Genetic Linkage Analysis of SNP (Single Nucleotide Polymorphism) markers permits the discovery of genetic correlations in complex diseases following their transmission through family generations. However, all major algorithms proposed in the literature require high computational power and memory availability, making large data sets very hard to analyze on a single CPU. A facility for achieving a Whole-Genome Linkage Analysis has been set up as a web application upon a highly distributed infrastructure: the EGEE Grid. Test cases have been run with 10,000 to one million SNPs per Chip and, after validation, the application has been effectively used for a study on cardiac conduction disorders.

AB - The Genetic Linkage Analysis of SNP (Single Nucleotide Polymorphism) markers permits the discovery of genetic correlations in complex diseases following their transmission through family generations. However, all major algorithms proposed in the literature require high computational power and memory availability, making large data sets very hard to analyze on a single CPU. A facility for achieving a Whole-Genome Linkage Analysis has been set up as a web application upon a highly distributed infrastructure: the EGEE Grid. Test cases have been run with 10,000 to one million SNPs per Chip and, after validation, the application has been effectively used for a study on cardiac conduction disorders.

KW - Atrial flutter

KW - Distributed computing

KW - Grid

KW - Linkage analysis

UR - http://www.scopus.com/inward/record.url?scp=78049327442&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=78049327442&partnerID=8YFLogxK

U2 - 10.1007/s10723-010-9163-y

DO - 10.1007/s10723-010-9163-y

M3 - Article

VL - 8

SP - 511

EP - 527

JO - Journal of Grid Computing

JF - Journal of Grid Computing

SN - 1570-7873

IS - 4

ER -