Abstract:
:Mantel statistics provide an additional step to standard approaches in the analysis of gene expression and covariate data, allow the calculation of standard statistics such as correlation, partial correlation, and regression coefficients, and, with permutation tests, provide P values for these statistics to relate the sample covariates to the expression levels. In this article we describe the Mantel statistics and illustrate their use and interpretation with data from a study of seven human oligodendrogliomas (brain tumors) where expression levels of 1013 genes and five covariates were previously analyzed using standard approaches. In the previous analysis of these data, qualitative relationships were found between gene expressions and two of the clinical covariates. We show in this article how the Mantel statistics are able to formally quantify and provide P values to determine statistical significance of these relationships. We also show how the Mantel statistics can be used to rank subsets of genes, found using standard clustering methods, in terms of differential expression across samples.
journal_name
Genet Epidemioljournal_title
Genetic epidemiologyauthors
Shannon WD,Watson MA,Perry A,Rich Kdoi
10.1002/gepi.1115subject
Has Abstractpub_date
2002-06-01 00:00:00pages
87-96issue
1eissn
0741-0395issn
1098-2272journal_volume
23pub_type
杂志文章abstract::Although next-generation DNA sequencing technologies have made rare variant association studies feasible and affordable, the development of powerful statistical methods for rare variant association studies is still under way. Most of the existing methods for rare variant association studies compare the number of rare ...
journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.21646
更新日期:2012-07-01 00:00:00
abstract::Contributions to Group 17 of the Genetic Analysis Workshop 15 considered dense markers in linkage disequilibrium (LD) in the context of either linkage or association analysis. Three contributions reported on methods for modeling LD or selecting a subset of markers in linkage equilibrium to perform linkage analysis. Wh...
journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.20291
更新日期:2007-01-01 00:00:00
abstract::Cancer has predominant environmental and somatic causes but the assessment of hereditary (genetic) causes is difficult, except for highly penetrant single-gene causes. Family studies are only partially informative in this regard because family members share diet and life-styles. Twin studies have been classically used...
journal_title:Genetic epidemiology
pub_type: 杂志文章
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abstract::A method is described for estimating excess relative risks of a disease from familial factors. Beginning with population-based series of cases and controls, a cohort of each subject's relatives is formed and checked for disease against a population based registry. The disease experience of the cohort formed from each ...
journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.1370120306
更新日期:1995-01-01 00:00:00
abstract::Over the past few years, an increasing number of studies have identified rare variants that contribute to trait heritability. Due to the extreme rarity of some individual variants, gene-based association tests have been proposed to aggregate the genetic variants within a gene, pathway, or specific genomic region as op...
journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.22081
更新日期:2017-12-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.22101
更新日期:2018-03-01 00:00:00
abstract::A robust approach for estimating standard errors of variance components by using quantitative phenotypes from families ascertained through a proband with an extreme phenotypic value is presented. Estimators that use the multivariate normal distribution as a "working likelihood" are obtained by computing conditional ln...
journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.1370040305
更新日期:1987-01-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.1370120653
更新日期:1995-01-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 临床试验,杂志文章,多中心研究
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更新日期:1997-01-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.1370100658
更新日期:1993-01-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.20615
更新日期:2011-11-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章,随机对照试验
doi:10.1002/gepi.22045
更新日期:2017-07-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.1370100305
更新日期:1993-01-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.21871
更新日期:2015-02-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.20416
更新日期:2009-11-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.20514
更新日期:2010-09-01 00:00:00
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pub_type: 杂志文章
doi:10.1002/gepi.22326
更新日期:2020-09-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/gepi.10222
更新日期:2003-04-01 00:00:00
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journal_title:Genetic epidemiology
pub_type: 杂志文章
doi:10.1002/(SICI)1098-2272(1996)13:3<285::AID-GEPI5>3
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journal_title:Genetic epidemiology
pub_type: 杂志文章
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journal_title:Genetic epidemiology
pub_type: 杂志文章
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pub_type: 临床试验,杂志文章
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journal_title:Genetic epidemiology
pub_type: 杂志文章
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pub_type: 杂志文章
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journal_title:Genetic epidemiology
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