GENEBPM statistics

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Citations per year

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Popular tool citations

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Tool usage distribution map

Tool usage distribution map
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Associated diseases

Associated diseases

GENEBPM specifications

Information


Unique identifier OMICS_14080
Name GENEBPM
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Versioning


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Maintainer


  • person_outline Andrew Morris <>

Publication for GENEBPM

GENEBPM in publications

 (4)
PMCID: 3973018
PMID: 23563607
DOI: 10.1038/ng.2606

[…] largest studies, we tested the association between the tails of height, bmi and whr and haplotypes across each established and novel locus separately for males and females within each study, using genebpm. the haplotypes were estimated from gwas snp data by means of an expectation-maximization algorithm and then clustered according to their allelic similarity. within a logistic […]

PMCID: 2828659
PMID: 20028947
DOI: 10.2337/db09-0920

[…] estimates (log odds ratios and lower and upper cis for each study), weighted using the inverse-variance method. an expectation-maximization algorithm was used to estimate haplotype frequencies, and genebpm software was used to cluster haplotypes by allelic make-up and risk of type 2 diabetes to obtain a bayes' factor (bf) in favor of association ()., of 31 tagging snps, 24 passed quality […]

PMCID: 2770053
PMID: 19825159
DOI: 10.1186/1471-2350-10-104

[…] the null hypothesis that haplotype frequencies are the same in cases and controls, versus the alternative hypothesis that haplotype frequencies are different between the two groups., the program genebpm, a program designed for use with candidate genes, tests for association of disease with causal variants at an unseen functional polymorphism [,]. this program makes use of the expectation […]

PMCID: 2934739
PMID: 19401682
DOI: 10.1038/mp.2009.34

[…] the cochran–armitage trend test (1 degree of freedom) for the case–control analysis. haplotype-based tests were calculated using plink., bayesian logistic regression analysis was performed using the genebpm algorithm,, again using both a case–control and family-based approach (see supplementary methods). the logistic regression model allowed for additive and dominance effects of unobserved […]


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GENEBPM institution(s)
The Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
GENEBPM funding source(s)
Supported by the Leverhulme Trust and the Wellcome Trust.

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