SNP ratio test statistics

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SNP ratio test specifications

Information


Unique identifier OMICS_04390
Name SNP ratio test
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Raw genotypes
Operating system Unix/Linux
Programming languages Perl
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for SNP ratio test

SNP ratio test in publications

 (8)
PMCID: 5059113
PMID: 27738493
DOI: 10.18632/genesandcancer.113

[…] (gsea) may complement and expand traditional gwas analysis to identify novel genes and pathways associated with bladder cancer risk. we selected three gsea methods: gen-gen, aligator, and the snp ratio test to evaluate cellular signaling pathways involved in bladder cancer susceptibility in a texas gwas population. the candidate genetic polymorphisms from the significant pathway selected […]

PMCID: 5058768
PMID: 27119226
DOI: 10.18632/oncotarget.8948

[…] of other risk pathways in bmd. more detailed information is described in table ., until now, there are kinds of software tools for pathway analysis of the gwas dataset []. some tools including snp ratio test [], gengen [], grass [], accept raw genotype datasets as input data. other tools including proxygeneld [], aligator [], i-gsea4gwas [], and plink set-test [], magenta [], and gesbap [] […]

PMCID: 4533004
PMID: 26264282
DOI: 10.1038/srep13025

[…] calcium signaling and chemokine signaling in cvd. more detailed information is described in ., until now, there are kinds of software tools for pathway analysis of gwas data. some tools including snp ratio test, gengen, grass, and plink set-test, accept raw genotype datasets as input data. other tools including proxygeneld, aligator, i-gsea4gwas, and gesbap accept the summary results […]

PMCID: 4391470
PMID: 25887572
DOI: 10.1186/s12863-015-0191-2

[…] increased to 40% from the original overall 28.57%., a total of 10 pathway-level programs were evaluated: aligator, gengen, gsa-snp, gsea-snp, magenta, modified generalized fisher method (mgfm), snp ratio test (srt), grass, hyst, and plink set test (pst). only the 20 pathways that were simulated to be associated were evaluated (additional file : table s3). the method […]

PMCID: 3743773
PMID: 23967329
DOI: 10.1371/journal.pone.0072653

[…] gene set enrichment analyses for dental caries, among which two perform competitive tests (association list go annotator (aligator) and gengen ) and the other two perform self-contained tests (snp ratio test (srt) and the mixed model ). the gwas data was collected from a recent dental caries association study , and the gene ontology (go) annotation database was the source for candidate […]


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SNP ratio test institution(s)
Neuropsychiatric Genetics Research Group, Department of Psychiatry, Trinity College Dublin, Ireland

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