PBAT: a comprehensive software package for genome-wide association analysis of complex family-based studies

[en] The PBAT software package (v2.5) provides a unique set of tools for complex family-based association analysis at a genome-wide level. PBAT can handle nuclear families with missing parental genotypes, extended pedigrees with missing genotypic information, analysis of single nucleotide polymorphisms (SNPs), haplotype analysis, quantitative traits, multivariate/longitudinal data and time to onset phenotypes. The data analysis can be adjusted for covariates and gene/environment interactions. Haplotype-based features include sliding windows and the reconstruction of the haplotypes of the probands. PBAT's screening tools allow the user successfully to handle the multiple comparisons problem at a genome-wide level, even for 100,000 SNPs and more. Moreover, PBAT is computationally fast. A genome scan of 300,000 SNPs in 2,000 trios takes 4 central processing unit (CPU)-days. PBAT is available for Linux, Sun Solaris and Windows XP.

Disciplines :

Physical, chemical, mathematical & earth Sciences: Multidisciplinary, general & others

Author, co-author :

Van Steen, Kristel ; Université de Liège - ULiège > Dép. d'électric., électron. et informat. (Inst.Montefiore) > Bioinformatique

Lange, C.

Language :

English

Title :

PBAT: a comprehensive software package for genome-wide association analysis of complex family-based studies

Publication date :

2005

Journal title :

Human Genomics

ISSN :

1473-9542

eISSN :

1479-7364

Publisher :

Henry Stewart Publications LLP

Volume :

Issue :

Pages :

67-9

Peer reviewed :

Peer Reviewed verified by ORBi

Commentary :

2005/04/09

Available on ORBi :

since 24 May 2010

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Bibliography

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