LINKAGE ANALYSIS

Feng R, Zhang H (2007). A Genomic Imprinting Test for Ordinal Traits in Pedigree Data. Genetic Epidemiology, 32(2):132-142.

Feng R, Zhang H (2007). A Score Test for Linkage Analysis of Ordinal Traits Based on IBD Sharing. Biostatistics. Epub 2007 May 22.

Hui-Chen Hsu, Lu Lu, N. Yi, G. V. Zant, R. W. Williams and J. D. Mountz. (2007). Quantitative Trait Loci (QTL) Mapping in Aging Systems. In “Methods in Molecular Biology: Biological Aging: Methods and Protocols”.

Yi N, Banerjee S, Pomp D, Yandell BS (2007). Bayesian mapping of genomewide interacting quantitative trait loci for ordinal traits. Genetics, 176(3):1855-64.

Yi N, Shriner D, Banerjee S, Mehta T, Pomp D, Yandell BS (2007). An efficient Bayesian model selection approach for interacting quantitative trait loci models with many effects. Genetics, 176(3):1865-77.

Yandell BS, Mehta T, Banerjee S, Shriner D, Venkataraman R, Moon JY, Neely WW, Wu H, von Smith R, Yi N (2007). R/qtlbim: QTL with Bayesian Interval Mapping in experimental crosses. Bioinformatics, 23(5):641-3.

Kaabi B, Gelernter J, Woods SW, Goddard A, Page GP, Elston RC. (2006). Genome scan for loci predisposing to anxiety disorders using a novel multivariate approach: strong evidence for a chromosome 4 risk locus. Am J Hum Genet, 78(4):543-53.

Zhang K, Wiener H, Beasley M, George V, Amos C, Allison DB. (2006). An Empirical Bayes Method for Updating Inferences in Analysis of Quantitative Trait Loci Using Information from Related Genome Scans. Genetics, 173, 2283-2296.

Yi, N., Denise K. Zinniel, Kyoungmi Kim, Eugene J. Eisen, Alfred Bartolucci, David B. Allison and Daniel Pomp. (2006). Bayesian analysis of multiple epistatic QTL models for body weight and body composition in Mice. Genetical Research, 87: 45-60.

Yang R, Yi N, Xu S (2006). Box-Cox transformation for QTL mapping. Genetica, 128(1-3):133-43.

Yi, N., Yandell, B. S., Churchill, G. A., Allison, D. B., Eisen, E. J., and Pomp, D. (2005). Bayesian model selection for genome-wide epistatic QTL analysis. Genetics, 170(3): 1333-1344

Oh C, Wang S, Liu N, Chen L, Zhao H (2005). A Bayesian Genome Screening of Maximum Number of Drinks as an Alcoholism Phenotype with the New Haseman-Elston Method. BMC Genetics, 6(Suppl 1):S116.

Wang S, Huang S, Liu N, Chen L, Oh C, Zhao H (2005). Whole-Genome Linkage Analysis in Mapping alcoholism genes Using Single Nucleotide Polymorphisms and Microsatellites. BMC Genetics, 6(Suppl 1):S28.

Gao G, Hoeschele I. (2005) Approximating identity-by-descent matrices using multiple haplotype configurations on pedigrees. Genetics, 171(1):365-76.

Beasley, T. M., Wiener, H., Zhang, K., Bartolucci, A. A., Amos, C. I., & Allison, D. B. (2005). Empirical Bayes Method for Incorporating Data from Multiple Genome Scans. Human Heredity, 60: 36-42.

Meng H, Hager K, Held M, Page GP, Olson RK, Pennington BF, DeFries JC, Smith SD, Gruen JR. (2005). TDT-association analysis of EKN1 and dyslexia in a Colorado twin cohort. Hum Genet,  118(1):87-90.

Meng H, Smith SD, Hager K, Held M, Liu J, Olson RK, Pennington BF, DeFries JC, Gelernter J, O'Reilly-Pol T, Somlo S, Skudlarski P, Shaywitz SE, Shaywitz BA, Marchione K, Wang Y, Paramasivam M, LoTurco JJ, Page GP, Gruen JR. (2005). DCDC2 is associated with reading disability and modulates neuronal development in the brain. Proc Natl Acad Sci U S A, 102(47):17053-8.

Puranam RS, Jain S, Kleindienst AM, Saxena S, Kim MK, Kelly Changizi B, Padma MV, Andrews I, Elston RC, Tiwari HK, McNamara JO. (2005). A locus for generalized tonic-clonic seizure susceptibility maps to chromosome 10q25-q26. Ann Neurol, 58(3):449-58.

Tiwari HK, Bouchard L, Perusse L, Allison DB. (2005). Is GAD2 on chromosome 10p12 a potential candidate gene for morbid obesity? Nutr Rev. 63(9):315-9.

Tiwari, H. K., Holt, J., George, V., Beasley, T. M., Amos, C. I., & Allison, D. B. (2005). New Joint Covariance- and Marginal-based Tests for Association & Linkage for Quantitative Traits for random and non-random sampling. Genetic Epidemiology, 28, 48-57.

Wiener HW, Go RC, Tiwari H, George V, Page GP. (2005). COGA phenotypes and linkages on chromosome 2. BMC Genet, Suppl 1:S125.

Yi N. (2004). A unified Markov chain Monte Carlo framework for mapping multiple quantitative trait loci. Genetics, 167, 967-975.

Yi N, Xu S, George V, Allison DB. (2004). Mapping multiple quantitative trait loci for complex ordinal traits. Behavior Genetics, 34, 3-15.

Beasley TM, Yang D, Yi N, Bullard DC, Amos CI, Xu S, Allison DB. (2004). Joint Tests for Quantitative Trait Loci in Experimental Crosses. Genetics Selection Evolution, 36, 601-619.

Shete S, Beasley M, Etzel C, Fernandez JR, Chen J, Allison DB, Amos CI. (2004). Effect of Winsorization on Power and Type 1 Error of Variance Components and Related Methods of QTL Detection. Behavior Genetics, 34, 153-159.

Feng R, Leckman JF, Zhang H (2004). Linkage analysis of ordinal traits for pedigree data. Proc Natl Acad Sci U S A, 30;101(48):16739-44.

Gelernter J, Liu X, Hesselbrock V, Page GP, Goddard A, Zhang H. (2004). Results of a genomewide linkage scan: Support for chromosomes 9 and 11 loci increasing risk for cigarette smoking. American Journal of Medical Genetics, 128B(1):94-101.

Gelernter J, Page GP, Bonvicini K, Woods SW, Pauls DL, Kruger S. (2004). A chromosome 14 risk locus for simple phobia: results from a genomewide linkage scan. Molecular Psychiatry, 8(1), 71-82.

Gelernter J, Page GP, Stein MB, Woods SW. (2004). Genome-wide linkage scan for loci predisposing to social phobia: evidence for a chromosome 16 risk locus. American Journal of Psychiatry, 161(1), 59-66.

Kaplan DE, Gayan J, Ahn J, Won TW, Pauls D, Olson RK, DeFries JC, Wood F, Pennington BF, Page GP, Smith SD, Gruen JR. (2004). Evidence for linkage and association with reading disability on 6p21.3-22. American Journal of Human Genetics, 70(5), 1287-1298.

Lappalainen J, Kranzler HR, Petrakis I, Somberg LK, Page G, Krystal JH, Gelernter J. (2004). Confirmation and fine mapping of the chromosome 1 alcohol dependence risk locus. Molecular Psychiatry, 9(3):312-9.

Page GP, George V, Go RC, Page PZ, Allison DB. (2004). "Are we there yet?": Deciding when one has demonstrated specific genetic causation in complex diseases and quantitative traits. American Journal of Human Genetics, 73(4), 711-719.

Rankinen T, Tiwari HK. (2004). Genome scans for Human Nutritional Traits. What have we learned? Nutrition, 20(1), 9-13.

Yi N, Chiu S, Allison DB, Fisler JS, Warden CH (2004). Epistatic interaction between two nonstructural loci on chromosomes 7 and 3 influences hepatic lipase activity in BSB mice. J Lipid Res, 45(11):2063-70.

Yi, N., George, V., Allison, D. B. (2003). Stochastic Search Variable Selection for Identifying Multiple Quantitative Trait Loci. Genetics, 164: 1129-1138.

Yi, N., Xu, S., Allison, D. B. (2003). Bayesian Model Choice and Search Strategies for Mapping Interacting Quantitative Trait Loci. Genetics, 165: 867-83.

Thiel, B. A., Chakravarti, A., Cooper, R. S., Luke, A., Lewis, S., Lynn, A., Tiwari, H. K., Schork, N. J., Weder, A. B. (2003). A genome wide linkage analysis investigating the determinants of blood pressure in Caucasians and African Americans. American Journal of Hypertension, 16, 151-153.

Fullerton, J., Cubin, M., Tiwari, H., Wang, C., Bomhra, A., Davidson, S., Miller, S., Fairburn, C., Goodwin, G., Neale, M., Fiddy, S., Mott, R., Allison, D. B., Flint, J. (2003). Linkage analysis of extremely discordant and concordant sibling pairs identifies QTL that influence variation in the human personality trait neuroticism. Am J Hum Genet. 2003 Apr;72(4):879-90.

Stein, C. M., Song, Y., Elston, R. C., Jun, G., Tiwari, H. K., Iyenger, S. K. (2003). Structural equation model-based genome scan for metabolic syndrome. BMC Genetics, 4 (Suppl 1):S99.

Yi, N., George, V., Allison, D. B. (2003). Stochastic Search Variable Selection for Identifying Multiple Quantitative Trait Loci. Genetics, 164, 1129.

Wiener, H., Elston, R. C., Tiwari, H. K. (2003). X-linked Extension of the Revised Haseman-Elston Algorithm for Linkage Analysis in Sib Pairs. Human Heredity, 55, 97-107.

Yi, N., Xu, S. (2003). Designs and Methods to Detect QTL for Production Traits Based on Random Genetic Models. Poultry Genetics, Breeding and Biotechnology. Edited by W.M. Muir and S.E. Aggrey. CABI Pubishing.

Gelernter, J., Page, G. P., Bonvicini, K., Woods, S. W., Pauls, D. L., Kruger, S. (2003). A Chromosome 14 Risk Locus for Simple Phobia: Results from a Genomewide Linkage Scan. Molecular Psychiatry, 8, 1, 71-82.

Yi, N., Xu, S. (2002). Mapping quantitative trait loci with epistatic effects. Genetical Research, 79, 185-198.

Yi, N., Xu, S. (2002). Linkage Analysis of Quantitative Trait Loci in Multiple Line Crosses. Genetica, 114, 217-230.

George, V., Laud, P. (2002). A Bayesian approach to the transmission/disequilibrium test for binary traits. Genetic Epidemiology, 22, 41-51.

Heo, M., Faith, M. S., Allison, D. B. (2002). Power and Sample Sizes for Linkage with Extreme Sampling Under an Oligogenic Model for Quantitative Traits.  Behavior Genetics, 32, 23-36.

Fernández, J. R., Etzel, C., Beasley, T. M., Shete, S., Amos, C. I., Allison, D. B. (2002). Improving the Power of Sib-Pair Quantitative Trait Loci (QTL) Detection by Phenotype Winsorization. Human Heredity, 53, 59-67.

Allison, D. B., Fernández, J. R., Heo, M., Zhu, S., Etzel, C., Beasley, T. M., Amos, C. I. (2002). Bias in Estimates of Quantitative-Trait Locus Effect in Genome Scans: Demonstration of the Phenomenon and a Method-of-Moments Procedure for Reducing Bias. American Journal of Human Genetics, 70, 575-585.

Allison, D. B., Neale, M. C. (2002). Joint Tests of Linkage & Association for Quantitative Traits. Theoretical Population Biology, 60, 239-251.

Kaplan, D. E., Gaya´n, Ahn, J. J., Won, T. W., Pauls, D., Olson, R. K., DeFries, J. C., Wood, F., Pennington, B. F., Page, G. P., Smith, D., Gruenl, J. R. (2002). Evidence for Linkage and Association with Reading Disability. American Journal of Human Genetics, 70, 1287-1298.

Page GP, Wilcox MA, Occhiuto J, Adak S, Neuberg D, Bajorunaite R, George V. (2001) Comparison of the QTDT analyses of IGE by different tests and between datasets. Genetic Epidemiology 21 (supp 1) S312-S316

Shete, S., Tiwari, H. K., Elston, R. C. (2000). On estimating the heterozygosity and polymorphism information content value. Theoretical Population Biology, 57, 265-271.

Allison, D. B., Fernández, J. R., Heo, M., Beasley, T. M. (2000). Testing the Robustness of the New Haseman-Elston Quantitative-Trait Loci Mapping Procedure. American Journal of Human Genetics, 67(1), 249-252.

Xu, S., Yi, N. (2000). Mixed model analysis of quantitative trait loci. Proceedings of the National Academy of Sciences, 97, 14542-14547.

Yi, N., Xu, S. (2000). Bayesian mapping of quantitative trait loci under the identity-by-descent-based variance component model. Genetics, 156, 411-22.

George, V., Tiwari, H. K., Zhu, X., Elston, R. C. (1999). A test of transmission/disequilibrium for quantitative traits in pedigree data using multiple regression. American Journal of Human Genetics, 65, 236-246.

Page GP, Amos CI, Boerwinkle E. (1998) The Quantitative LOD score: Test statistic and sample size for exclusion and linkage of quantitative traits in human sibships. American Journal of Human Genetics 62: 962-968.

Tiwari, H. K., Elston, R. C. (1998). Restrictions on Components of Variance for Epistatic Models. Theoretical Population Biology, 54, 161-174.

Tiwari, H. K., Elston, R. C. (1997). Deriving Components of Genetic Variance for Multilocus Models. Genetic Epidemiology, 14, 1131-1136.

Tiwari, H. K., Elston, R. C. (1997). Linkage of Multilocus Components of Variance to Polymorphic Markers. Annals Human Genetics, 61, 253-261.