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Volume 6 Supplement 1

Genetic Analysis Workshop 14: Microsatellite and single-nucleotide polymorphism

Proceedings

Edited by Joan E Bailey-Wilson, Laura Almasy, Mariza de Andrade, Julia Bailey, Heike Bickeböller, Heather J Cordell, E Warwick Daw, Lynn Goldin, Ellen L Goode, Courtney Gray-McGuire, Wayne Hening, Gail Jarvik, Brion S Maher, Nancy Mendell, Andrew D Paterson, John Rice, Glen Satten, Brian Suarez, Veronica Vieland, Marsha Wilcox, Heping Zhang, Andreas Ziegler and Jean W MacCluer

Genetic Analysis Workshop 14: Microsatellite and single-nucleotide polymorphism. Go to conference site.

Noordwijkerhout, The Netherlands7-10 September 2004

Page 3 of 4

  1. Content type: Proceedings

    We report the analysis results of the Genetic Analysis Workshop 14 simulated microsatellite marker dataset, using replicate 50 from the Danacaa population. We applied several methods for association analysis o...

    Authors: Rachid El Galta, Li Hsu and Jeanine J Houwing-Duistermaat

    Citation: BMC Genetics 2005 6(Suppl 1):S101

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  2. Content type: Proceedings

    Although current methods in genetic epidemiology have been extremely successful in identifying genetic loci responsible for Mendelian traits, most common diseases do not follow simple Mendelian modes of inheri...

    Authors: Kimberly F Kerstann, Kevin Jacobs, Xiaohong (Rose) Yang, Andrew W Bergen, Lynn R Goldin and Alisa M Goldstein

    Citation: BMC Genetics 2005 6(Suppl 1):S102

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  3. Content type: Proceedings

    For mapping complex disease traits, linkage studies are often followed by a case-control association strategy in order to identify disease-associated genes/single-nucleotide polymorphisms (SNPs). Substantial e...

    Authors: Chunyu Liu, L Adrienne Cupples and Josée Dupuis

    Citation: BMC Genetics 2005 6(Suppl 1):S103

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  4. Content type: Proceedings

    The aim of the present analysis is to combine evidence for association from the two most commonly used designs in genetic association analysis, the case-control design and the transmission disequilibrium test ...

    Authors: Hein Putter, Jeanine J Houwing-Duistermaat and Nico JD Nagelkerke

    Citation: BMC Genetics 2005 6(Suppl 1):S106

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  5. Content type: Proceedings

    Assigning haplotypes in a case-control study is a challenging problem. We proposed a method to quantify the information loss due to missing phase information. We determined which individuals were responsible f...

    Authors: Hae-Won Uh, Jeanine J Houwing-Duistermaat, Hein Putter and Hans C van Houwelingen

    Citation: BMC Genetics 2005 6(Suppl 1):S108

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  6. Content type: Proceedings

    To test the association between a dichotomous phenotype and genetic marker based on family data, we propose a least-squares method using the vector of phenotypes and their cross products within each family. Th...

    Authors: Song Yang, Jungnam Joo, Ziding Feng and Jing-Ping Lin

    Citation: BMC Genetics 2005 6(Suppl 1):S110

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  7. Content type: Proceedings

    We compared the results of quantitative linkage analysis using single-nucleotide polymorphisms and microsatellite markers and introduced a new screening test for multivariate quantitative linkage analysis usin...

    Authors: Mariza de Andrade, Curtis L Olswold, Joshua P Slusser, Larry A Tordsen, Elizabeth J Atkinson, Kari G Rabe and Susan L Slager

    Citation: BMC Genetics 2005 6(Suppl 1):S112

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  8. Content type: Proceedings

    Genetic components significantly contribute to the susceptibilities of alcoholism and its endophenotypes, such as event-related potential measures and electroencephalogram. An endophenotype is a correlated tra...

    Authors: Jing-Ping Lin and Colin Wu

    Citation: BMC Genetics 2005 6(Suppl 1):S114

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  9. Content type: Proceedings

    Due to the recent gains in the availability of single-nucleotide polymorphism data, genome-wide association testing has become feasible. It is hoped that this additional data may confirm the presence of diseas...

    Authors: Amy Murphy, Matthew B McQueen, Jessica Su, Peter Kraft, Ross Lazarus, Nan M Laird, Christoph Lange and Kristel Van Steen

    Citation: BMC Genetics 2005 6(Suppl 1):S115

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  10. Content type: Proceedings

    Common human disorders, such as alcoholism, may be the result of interactions of many genes as well as environmental risk factors. Therefore, it is important to incorporate gene × gene and gene × environment i...

    Authors: Cheongeun Oh, Shuang Wang, Nianjun Liu, Liang Chen and Hongyu Zhao

    Citation: BMC Genetics 2005 6(Suppl 1):S116

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  11. Content type: Proceedings

    We used a maximum-likelihood based multipoint linkage approach implemented in SOLAR to examine simultaneously linkage for three electrophysiological endophenotypes from the Collaborative Study of the Genetics ...

    Authors: Diane M Warren, Thomas D Dyer, Charles P Peterson, Michael C Mahaney, John Blangero and Laura Almasy

    Citation: BMC Genetics 2005 6(Suppl 1):S117

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  12. Content type: Proceedings

    A genetic analysis of age of onset of alcoholism was performed on the Collaborative Study on the Genetics of Alcoholism data released for Genetic Analysis Workshop 14. Our study illustrates an application of t...

    Authors: Victor Apprey, Joseph Afful, Jules P Harrell, Robert E Taylor and George E Bonney

    Citation: BMC Genetics 2005 6(Suppl 1):S119

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  13. Content type: Proceedings

    Studies have shown that genetic and environmental factors and their interactions affect several alcoholism phenotypes. Genotype × alcoholism (G×A) interaction refers to the environmental (alcoholic and non-alc...

    Authors: Rector Arya, Thomas D Dyer, Diane M Warren, Christopher P Jenkinson, Ravindranath Duggirala and Laura Almasy

    Citation: BMC Genetics 2005 6(Suppl 1):S120

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  14. Content type: Proceedings

    In this paper we apply two novel quantitative trait linkage statistics based on the posterior probability of linkage (PPL) to chromosome 4 from the GAW 14 COGA dataset. Our approaches are advantageous since th...

    Authors: Christopher W Bartlett and Veronica J Vieland

    Citation: BMC Genetics 2005 6(Suppl 1):S121

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  15. Content type: Proceedings

    Genetic maps based on single-nucleotide polymorphisms (SNP) are increasingly being used as an alternative to microsatellite maps. This study compares linkage results for both types of maps for a neurophysiolog...

    Authors: Gerald Dunn, Anthony L Hinrichs, Sarah Bertelsen, Carol H Jin, John SK Kauwe, Brian K Suarez and Laura J Bierut

    Citation: BMC Genetics 2005 6(Suppl 1):S122

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  16. Content type: Proceedings

    We explored the evidence for a quantitative trait locus (QTL)-specific genotype × alcoholism interaction for an evoked electroencephalogram theta band oscillation (ERP) phenotype on a region of chromosome 7 in...

    Authors: Lisa J Martin, Christy L Avery, Jeff T Williams and Kari E North

    Citation: BMC Genetics 2005 6(Suppl 1):S123

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  17. Content type: Proceedings

    Using data provided by the Collaborative Study on the Genetics of Alcoholism we studied the genetics of a quantitative trait: the maximum number of drinks consumed in a 24-hour period. A two-stage method was u...

    Authors: Scott F Saccone, Nancy L Saccone, Rosalind J Neuman and John P Rice

    Citation: BMC Genetics 2005 6(Suppl 1):S124

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  18. Content type: Proceedings

    An initial linkage analysis of the alcoholism phenotype as defined by DSM-III-R criteria and alcoholism defined by DSM-IV criteria showed many, sometimes striking, inconsistencies. These inconsistencies are gr...

    Authors: Howard W Wiener, Rodney CP Go, Hemant Tiwari, Varghese George and Grier P Page

    Citation: BMC Genetics 2005 6(Suppl 1):S125

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  19. Content type: Proceedings

    Recently, alcohol-related traits have been shown to have a genetic component. Here, we study the association of specific genetic measures in one of the three sets of electrophysiological measures in families w...

    Authors: Ao Yuan, Victor Apprey, Jules P Harrell, Robert E Taylor and George E Bonney

    Citation: BMC Genetics 2005 6(Suppl 1):S126

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  20. Content type: Proceedings

    Genome-wide association will soon be available to use as an adjunct to traditional linkage analysis. We studied alcoholism in 119 families collected by the Collaborative Study on the Genetics of Alcoholism and...

    Authors: Xiaofeng Zhu, Richard Cooper, Donghui Kan, Guichan Cao and Xiaodong Wu

    Citation: BMC Genetics 2005 6(Suppl 1):S128

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  21. Content type: Proceedings

    Alcoholism is a complex disease. As with other common diseases, genetic variants underlying alcoholism have been illusive, possibly due to the small effect from each individual susceptible variant, gene × envi...

    Authors: Liang Chen, Nianjun Liu, Shuang Wang, Cheongeun Oh, Nicholas J Carriero and Hongyu Zhao

    Citation: BMC Genetics 2005 6(Suppl 1):S130

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  22. Content type: Proceedings

    In genome-wide genetic studies with a large number of markers, balancing the type I error rate and power is a challenging issue. Recently proposed false discovery rate (FDR) approaches are promising solutions ...

    Authors: Qiong Yang, Jing Cui, Irmarie Chazaro, L Adrienne Cupples and Serkalem Demissie

    Citation: BMC Genetics 2005 6(Suppl 1):S134

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  23. Content type: Proceedings

    A supervised learning method, support vector machine, was used to analyze the microsatellite marker dataset of the Collaborative Study on the Genetics of Alcoholism Problem 1 for the Genetic Analysis Workshop ...

    Authors: Robert Yu and Sanjay Shete

    Citation: BMC Genetics 2005 6(Suppl 1):S136

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  24. Content type: Proceedings

    Endophenotypes such as behavior disorders have been increasingly adopted in genetic studies for complex traits. For efficient gene mapping, it is essential that an endophenotype is associated with the disease ...

    Authors: Chien-Hsiun Chen, Chih-Ling Kuo, Michael CP Lin, Yu-Jen Liang and Cathy SJ Fann

    Citation: BMC Genetics 2005 6(Suppl 1):S139

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  25. Content type: Proceedings

    Previous genome scan linkage analyses of the disease Kofendrerd Personality Disorder (KPD) with microsatellites led to detect some regions on chromosomes 1, 3, 5, and 9 that were identical for the three popula...

    Authors: Marie-Hélène Dizier, Emmanuelle Génin, Marie Claude Babron and Catherine Bourgain

    Citation: BMC Genetics 2005 6(Suppl 1):S140

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  26. Content type: Proceedings

    The Genetic Analysis Workshop 14 simulated data presents an interesting, challenging, and plausible example of a complex disease interaction in a dataset. This paper summarizes the ease of detection for each o...

    Authors: Mark W Logue, Andrew W George, M Anne Spence and Veronica J Vieland

    Citation: BMC Genetics 2005 6(Suppl 1):S141

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  27. Content type: Proceedings

    The simulated dataset of the Genetic Analysis Workshop 14 provided affection status and the presence or absence of 12 traits. It was determined that all affected individuals must have traits E, F and H (EFH ph...

    Authors: Nathan Pankratz, Ellen Edenberg and Tatiana Foroud

    Citation: BMC Genetics 2005 6(Suppl 1):S142

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  28. Content type: Proceedings

    Linkage analysis methods that incorporate etiological heterogeneity of complex diseases are likely to demonstrate greater power than traditional linkage analysis methods. Several such methods use covariates to...

    Authors: Brian H Reck, Nandita Mukhopadhyay, Hui-Ju Tsai and Daniel E Weeks

    Citation: BMC Genetics 2005 6(Suppl 1):S143

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  29. Content type: Proceedings

    Complex diseases are multifactorial in nature and can involve multiple loci with gene × gene and gene × environment interactions. Research on methods to uncover the interactions between those genes that confer...

    Authors: Guy N Brock, Brion S Maher, Toby H Goldstein, Margaret E Cooper and Mary L Marazita

    Citation: BMC Genetics 2005 6(Suppl 1):S144

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  30. Content type: Proceedings

    The multifactor dimensionality reduction (MDR) is a model-free approach that can identify gene × gene or gene × environment effects in a case-control study. Here we explore several modifications of the MDR met...

    Authors: Hao Mei, Deqiong Ma, Allison Ashley-Koch and Eden R Martin

    Citation: BMC Genetics 2005 6(Suppl 1):S145

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  31. Content type: Proceedings

    Complex diseases are generally thought to be under the influence of multiple, and possibly interacting, genes. Many association methods have been developed to identify susceptibility genes assuming a single-ge...

    Authors: Yan Meng, Qianli Ma, Yi Yu, John Farrell, Lindsay A Farrer and Marsha A Wilcox

    Citation: BMC Genetics 2005 6(Suppl 1):S146

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  32. Content type: Proceedings

    Simulated Genetic Analysis Workshop14 data were analyzed by jointly testing linkage and association and by accounting for epistasis using a candidate gene approach. Our group was unblinded to the "answers." Th...

    Authors: Joshua Millstein, Kimberly D Siegmund, David V Conti and W James Gauderman

    Citation: BMC Genetics 2005 6(Suppl 1):S147

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  33. Content type: Proceedings

    Genomic screens generally employ a single-locus strategy for linkage analysis, but this may have low power in the presence of epistasis. Ordered subsets analysis (OSA) is a method for conditional linkage analy...

    Authors: Svati H Shah, Michael A Schmidt, Hao Mei, William K Scott, Elizabeth R Hauser and Silke Schmidt

    Citation: BMC Genetics 2005 6(Suppl 1):S148

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  34. Content type: Proceedings

    Two factors impacting robustness of the original transmission disequilibrium test (TDT) are: i) missing parental genotypes and ii) undetected genotype errors. While it is known that independently these factors...

    Authors: Sandra Barral, Chad Haynes, Mark A Levenstien and Derek Gordon

    Citation: BMC Genetics 2005 6(Suppl 1):S150

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