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 Netherlands

7-10 September 2004

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  1. Proceedings

    Description of the data from the Collaborative Study on the Genetics of Alcoholism (COGA) and single-nucleotide polymorphism genotyping for Genetic Analysis Workshop 14

    The data provided to the Genetic Analysis Workshop 14 (GAW 14) was the result of a collaboration among several different groups, catalyzed by Elizabeth Pugh from The Center for Inherited Disease Research (CIDR...

    Howard J Edenberg, Laura J Bierut, Paul Boyce, Manqiu Cao, Simon Cawley, Richard Chiles, Kimberly F Doheny, Mark Hansen, Tony Hinrichs, Kevin Jones, Mark Kelleher, Giulia C Kennedy, Guoying Liu, Gregory Marcus, Celeste McBride, Sarah Shaw Murray…

    BMC Genetics 2005 6(Suppl 1):S2

    Published on: 30 December 2005

  2. Proceedings

    Construction of the model for the Genetic Analysis Workshop 14 simulated data: genotype-phenotype relationships, gene interaction, linkage, association, disequilibrium, and ascertainment effects for a complex phenotype

    The Genetic Analysis Workshop 14 simulated dataset was designed 1) To test the ability to find genes related to a complex disease (such as alcoholism). Such a disease may be given a variety of definitions by d...

    David A Greenberg, Junying Zhang, Dvora Shmulewitz, Lisa J Strug, Regina Zimmerman, Veena Singh and Sudhir Marathe

    BMC Genetics 2005 6(Suppl 1):S3

    Published on: 30 December 2005

  3. Proceedings

    Genome scan linkage analysis comparing microsatellites and single-nucleotide polymorphisms markers for two measures of alcoholism in chromosomes 1, 4, and 7

    We analyzed 143 pedigrees (364 nuclear families) in the Collaborative Study on the Genetics of Alcoholism (COGA) data provided to the participants in the Genetic Analysis Workshop 14 (GAW14) with the goal of c...

    Guanjie Chen, Adebowale Adeyemo, Jie Zhou, Ao Yuan, Yuanxiu Chen and Charles Rotimi

    BMC Genetics 2005 6(Suppl 1):S4

    Published on: 30 December 2005

  4. Proceedings

    Comparison of single-nucleotide polymorphisms and microsatellites in detecting quantitative trait loci for alcoholism: The Collaborative Study on the Genetics of Alcoholism

    The feasibility of effectively analyzing high-density single nucleotide polymorphism (SNP) maps in whole genome scans of complex traits is not known. The purpose of this study was to compare variance component...

    Helen Kim, Carolyn M Hutter, Stephanie A Monks and Karen L Edwards

    BMC Genetics 2005 6(Suppl 1):S5

    Published on: 30 December 2005

  5. Proceedings

    Comparison of the power between microsatellite and single-nucleotide polymorphism markers for linkage and linkage disequilibrium mapping of an electrophysiological phenotype

    We performed linkage and linkage disequilibrium (LD) mapping analyses to compare the power between microsatellite and single nucleotide polymorphism (SNP) markers. Chromosome-wide analyses were performed for a...

    Hsiu-Fen Lin, Suh-Hang Hank Juo and Rong Cheng

    BMC Genetics 2005 6(Suppl 1):S7

    Published on: 30 December 2005

  6. Proceedings

    Genome-wide linkage analysis for alcohol dependence: a comparison between single-nucleotide polymorphism and microsatellite marker assays

    Both theoretical and applied studies have proven that the utility of single nucleotide polymorphism (SNP) markers in linkage analysis is more powerful and cost-effective than current microsatellite marker assa...

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

    BMC Genetics 2005 6(Suppl 1):S8

    Published on: 30 December 2005

  7. Proceedings

    Comparison of marker types and map assumptions using Markov chain Monte Carlo-based linkage analysis of COGA data

    We performed multipoint linkage analysis of the electrophysiological trait ECB21 on chromosome 4 in the full pedigrees provided by the Collaborative Study on the Genetics of Alcoholism (COGA). Three Markov cha...

    Weiva Sieh, Saonli Basu, Audrey Q Fu, Joseph H Rothstein, Paul A Scheet, William CL Stewart, Yun J Sung, Elizabeth A Thompson and Ellen M Wijsman

    BMC Genetics 2005 6(Suppl 1):S11

    Published on: 30 December 2005

  8. Proceedings

    Genome-wide linkage analysis of age at onset of alcohol dependence: a comparison between microsatellites and single-nucleotide polymorphisms

    Using the dataset provided for Genetic Analysis Workshop 14 by the Collaborative Study on the Genetics of Alcoholism, we performed genome-wide linkage analysis of age at onset of alcoholism to compare the util...

    Bamidele O Tayo, Yulan Liang, Saverio Stranges and Maurizio Trevisan

    BMC Genetics 2005 6(Suppl 1):S12

    Published on: 30 December 2005

  9. Proceedings

    Linkage analysis of the GAW14 simulated dataset with microsatellite and single-nucleotide polymorphism markers in large pedigrees

    Recent studies have suggested that a high-density single nucleotide polymorphism (SNP) marker set could provide equivalent or even superior information compared with currently used microsatellite (STR) marker ...

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

    BMC Genetics 2005 6(Suppl 1):S14

    Published on: 30 December 2005

  10. Proceedings

    Whole-genome variance components linkage analysis using single-nucleotide polymorphisms versus microsatellites on quantitative traits of derived phenotypes from factor analysis of electroencephalogram waves

    Alcohol dependence is a serious public health problem. We studied data from families participating in the Collaborative Study on the Genetics of Alcoholism (COGA) and made available to participants in the Gene...

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

    BMC Genetics 2005 6(Suppl 1):S15

    Published on: 30 December 2005

  11. Proceedings

    Which strategy is better for linkage analysis: single-nucleotide polymorphisms or microsatellites? Evaluation by identity-by-state – identity-by-descent transformation affected sib-pair method on GAW14 data

    The central issue for Genetic Analysis Workshop 14 (GAW14) is the question, which is the better strategy for linkage analysis, the use of single-nucleotide polymorphisms (SNPs) or microsatellite markers? To an...

    Qingqi Yue, Victor Apprey and George E Bonney

    BMC Genetics 2005 6(Suppl 1):S16

    Published on: 30 December 2005

  12. Proceedings

    A genome-wide linkage analysis of alcoholism on microsatellite and single-nucleotide polymorphism data, using alcohol dependence phenotypes and electroencephalogram measures

    The Collaborative Study on the Genetics of Alcoholism (COGA) is a large-scale family study designed to identify genes that affect the risk for alcoholism and alcohol-related phenotypes. We performed genome-wid...

    Chun Zhang, Simon Cawley, Guoying Liu, Manqiu Cao, Harley Gorrell and Giulia C Kennedy

    BMC Genetics 2005 6(Suppl 1):S17

    Published on: 30 December 2005

  13. Proceedings

    Detection of susceptibility loci by genome-wide linkage analysis

    The objective of this study is to evaluate the efficacy of a model-free linkage statistics for finding evidence of linkage using two different maps and to illustrate how the comparison of results from several ...

    Marie-Claude Babron, Catherine Bourgain, Anne-Louise Leutenegger and Françoise Clerget-Darpoux

    BMC Genetics 2005 6(Suppl 1):S18

    Published on: 30 December 2005

  14. Proceedings

    Linkage mapping of a complex trait in the New York population of the GAW14 simulated dataset: a multivariate phenotype approach

    Multivariate phenotypes underlie complex traits. Thus, instead of using the end-point trait, it may be statistically more powerful to use a multivariate phenotype correlated to the end-point trait for detectin...

    Saurabh Ghosh, Samsiddhi Bhattacharjee, Gourab Basu, Sandip Pal and Partha P Majumder

    BMC Genetics 2005 6(Suppl 1):S19

    Published on: 30 December 2005

  15. Proceedings

    Investigation of altering single-nucleotide polymorphism density on the power to detect trait loci and frequency of false positive in nonparametric linkage analyses of qualitative traits

    Genome-wide linkage analysis using microsatellite markers has been successful in the identification of numerous Mendelian and complex disease loci. The recent availability of high-density single-nucleotide pol...

    Alison P Klein, Ya-Yu Tsai, Priya Duggal, Elizabeth M Gillanders, Michael Barnhart, Rasika A Mathias, Ian P Dusenberry, Amy Turiff, Peter S Chines, Janet Goldstein, Robert Wojciechowski, Wayne Hening, Elizabeth W Pugh and Joan E Bailey-Wilson

    BMC Genetics 2005 6(Suppl 1):S20

    Published on: 30 December 2005

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