A genome-wide association study platform built on iPlant cyber-infrastructure

Liya Wang, Doreen Ware, Carol Lushbough, Nirav C Merchant, Lincoln Stein

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

Summary We demonstrate a flexible genome-wide association study platform built upon the iPlant Collaborative Cyber-infrastructure. The platform supports big data management, sharing, and large-scale study of both genotype and phenotype data on clusters. End users can add their own analysis tools and create customized analysis workflows through the graphical user interfaces in both iPlant Discovery Environment and BioExtract server.

Original languageEnglish (US)
Pages (from-to)420-432
Number of pages13
JournalConcurrency Computation
Volume27
Issue number2
DOIs
StatePublished - Feb 1 2015

Fingerprint

Graphical user interfaces
Information management
Genome
Servers
Infrastructure
Genes
Graphical User Interface
Data Management
Genotype
Phenotype
Work Flow
Sharing
Server
Demonstrate
Big data

Keywords

  • BioExtract server
  • GWAS
  • iPlant Data Store
  • iPlant Discovery Environment
  • iPlant Foundation API

ASJC Scopus subject areas

  • Theoretical Computer Science
  • Software
  • Computer Science Applications
  • Computer Networks and Communications
  • Computational Theory and Mathematics

Cite this

A genome-wide association study platform built on iPlant cyber-infrastructure. / Wang, Liya; Ware, Doreen; Lushbough, Carol; Merchant, Nirav C; Stein, Lincoln.

In: Concurrency Computation, Vol. 27, No. 2, 01.02.2015, p. 420-432.

Research output: Contribution to journalArticle

Wang, Liya ; Ware, Doreen ; Lushbough, Carol ; Merchant, Nirav C ; Stein, Lincoln. / A genome-wide association study platform built on iPlant cyber-infrastructure. In: Concurrency Computation. 2015 ; Vol. 27, No. 2. pp. 420-432.
@article{0393659831114be19e8ea6382c81fdbb,
title = "A genome-wide association study platform built on iPlant cyber-infrastructure",
abstract = "Summary We demonstrate a flexible genome-wide association study platform built upon the iPlant Collaborative Cyber-infrastructure. The platform supports big data management, sharing, and large-scale study of both genotype and phenotype data on clusters. End users can add their own analysis tools and create customized analysis workflows through the graphical user interfaces in both iPlant Discovery Environment and BioExtract server.",
keywords = "BioExtract server, GWAS, iPlant Data Store, iPlant Discovery Environment, iPlant Foundation API",
author = "Liya Wang and Doreen Ware and Carol Lushbough and Merchant, {Nirav C} and Lincoln Stein",
year = "2015",
month = "2",
day = "1",
doi = "10.1002/cpe.3236",
language = "English (US)",
volume = "27",
pages = "420--432",
journal = "Concurrency Computation Practice and Experience",
issn = "1532-0626",
publisher = "John Wiley and Sons Ltd",
number = "2",

}

TY - JOUR

T1 - A genome-wide association study platform built on iPlant cyber-infrastructure

AU - Wang, Liya

AU - Ware, Doreen

AU - Lushbough, Carol

AU - Merchant, Nirav C

AU - Stein, Lincoln

PY - 2015/2/1

Y1 - 2015/2/1

N2 - Summary We demonstrate a flexible genome-wide association study platform built upon the iPlant Collaborative Cyber-infrastructure. The platform supports big data management, sharing, and large-scale study of both genotype and phenotype data on clusters. End users can add their own analysis tools and create customized analysis workflows through the graphical user interfaces in both iPlant Discovery Environment and BioExtract server.

AB - Summary We demonstrate a flexible genome-wide association study platform built upon the iPlant Collaborative Cyber-infrastructure. The platform supports big data management, sharing, and large-scale study of both genotype and phenotype data on clusters. End users can add their own analysis tools and create customized analysis workflows through the graphical user interfaces in both iPlant Discovery Environment and BioExtract server.

KW - BioExtract server

KW - GWAS

KW - iPlant Data Store

KW - iPlant Discovery Environment

KW - iPlant Foundation API

UR - http://www.scopus.com/inward/record.url?scp=84988222580&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84988222580&partnerID=8YFLogxK

U2 - 10.1002/cpe.3236

DO - 10.1002/cpe.3236

M3 - Article

VL - 27

SP - 420

EP - 432

JO - Concurrency Computation Practice and Experience

JF - Concurrency Computation Practice and Experience

SN - 1532-0626

IS - 2

ER -