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hapConstructor specifications

Information


Unique identifier OMICS_26777
Name hapConstructor
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Advanced
Version 2.0.1
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Ryan Abo

Publications for hapConstructor

hapConstructor citations

 (4)
library_books

Evaluation of 41 Candidate Gene Variants for Obesity in the EPIC Potsdam Cohort by Multi Locus Stepwise Regression

2013
PLoS One
PMCID: 3709896
PMID: 23874820
DOI: 10.1371/journal.pone.0068941

[…] estrictions within the stepwise search process would result in a magnitude of SNP combinations more likely to be false-positive. As Curtin et al. (2010) recommended for their algorithm implemented in hapConstructor we used stringent significance thresholds in each step of the MSR to focus on final SNP combinations which may not fail multiple testing corrections , .Curtin et al. (2010) used the hap […]

library_books

Multi locus stepwise regression: a haplotype based algorithm for finding genetic associations applied to atopic dermatitis

2012
BMC Med Genet
PMCID: 3398269
PMID: 22284537
DOI: 10.1186/1471-2350-13-8

[…] ssential increase in significance. We used as empirical stop criterion a decrease of the best ten -log10(p values) mean by less than 10%. Our stop criterion differs from those more elaborated ones in hapConstructor [] and SHARE []. It has been chosen with the aim to estimate the general effect of stepwise added SNPs in a simple manner. Even in the unlikely case that only one of the 10 best pattern […]

library_books

Haplotype association analyses in resources of mixed structure using Monte Carlo testing

2010
BMC Bioinformatics
PMCID: 3016409
PMID: 21143908
DOI: 10.1186/1471-2105-11-592

[…] that should be tested. It may be of interest to note, that the MC, MLE haplotype association approach outlined in this paper has also been incorporated into a peripheral Genie software package called hapConstructor [] (http://bioinformatics.med.utah.edu/Genie/hapConstructor.html). HapConstructor is a data mining software aimed at identifying the most significant haplotypes from a data set. However […]

library_books

Exploring multilocus associations of inflammation genes and colorectal cancer risk using hapConstructor

2010
BMC Med Genet
PMCID: 3006374
PMID: 21129206
DOI: 10.1186/1471-2350-11-170

[…] etic polymorphisms, potentially modified by lifestyle and environmental factors, that appear to influence colon and rectal cancer differentially [-], and thus these results are not surprising. In our hapConstructor analysis, 2-locus haplotypes within the NFKB1 gene were significant beyond single SNP results (Table ); however, after considering LD between markers and adjusting for multiple comparis […]

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hapConstructor institution(s)
Department of Biomedical Informatics, University of Utah School of Medicine, UT, USA; Department of Internal Medicine, University of Utah School of Medicine, UT, USA
hapConstructor funding source(s)
Supported by an NLM fellow (grant T15 LM0724); National Institutes of Health (CA 098364); the Susan G. Komen Foundation and the Avon Foundation Breast Cancer Fund.

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