quantitative trait loci

Summary

Summary: Locations, on the GENOME, of GENES or other genetic elements that encode or control the expression of a quantitative trait (QUANTITATIVE TRAIT, HERITABLE).

Top Publications

  1. ncbi TASSEL: software for association mapping of complex traits in diverse samples
    Peter J Bradbury
    United States Department of Agriculture Agricultural Research Service, Institute for Genomic Diversity, Cornell University, Ithaca, New York, USA
    Bioinformatics 23:2633-5. 2007
  2. pmc Understanding mechanisms underlying human gene expression variation with RNA sequencing
    Joseph K Pickrell
    Department of Human Genetics, The University of Chicago, Chicago 60637, USA
    Nature 464:768-72. 2010
  3. ncbi R/qtl: QTL mapping in experimental crosses
    Karl W Broman
    Department of Biostatistics, Johns Hopkins University, 615 N Wolfe St, Baltimore, MD 21205, USA
    Bioinformatics 19:889-90. 2003
  4. ncbi Genome-wide association studies of 14 agronomic traits in rice landraces
    Xuehui Huang
    National Center for Gene Research, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
    Nat Genet 42:961-7. 2010
  5. pmc Transcriptome genetics using second generation sequencing in a Caucasian population
    Stephen B Montgomery
    Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, 1211 Switzerland
    Nature 464:773-7. 2010
  6. pmc Variance component model to account for sample structure in genome-wide association studies
    Hyun Min Kang
    Center for Statistical Genetics, Department of Biostatistics, University of Michigan, Ann Arbor, Michigan, USA
    Nat Genet 42:348-54. 2010
  7. pmc Development and characterization of a high density SNP genotyping assay for cattle
    Lakshmi K Matukumalli
    Department of Bioinformatics and Computational Biology, George Mason University, Manassas, Virginia, United States of America
    PLoS ONE 4:e5350. 2009
  8. pmc Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain
    J Raphael Gibbs
    Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Genet 6:e1000952. 2010
  9. pmc Trait-associated SNPs are more likely to be eQTLs: annotation to enhance discovery from GWAS
    Dan L Nicolae
    Department of Medicine, University of Chicago, Chicago, Illinois, United States of America
    PLoS Genet 6:e1000888. 2010
  10. pmc DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines
    Jordana T Bell
    Department of Human Genetics, The University of Chicago, Chicago, IL 60637, USA
    Genome Biol 12:R10. 2011

Detail Information

Publications365 found, 100 shown here

  1. ncbi TASSEL: software for association mapping of complex traits in diverse samples
    Peter J Bradbury
    United States Department of Agriculture Agricultural Research Service, Institute for Genomic Diversity, Cornell University, Ithaca, New York, USA
    Bioinformatics 23:2633-5. 2007
    ..Other features include analyzing insertions/deletions, calculating diversity statistics, integration of phenotypic and genotypic data, imputing missing data and calculating principal components...
  2. pmc Understanding mechanisms underlying human gene expression variation with RNA sequencing
    Joseph K Pickrell
    Department of Human Genetics, The University of Chicago, Chicago 60637, USA
    Nature 464:768-72. 2010
    ..in gene expression is a central goal of both medical and evolutionary genetics, and studies of expression quantitative trait loci (eQTLs) have become an important tool for achieving this goal...
  3. ncbi R/qtl: QTL mapping in experimental crosses
    Karl W Broman
    Department of Biostatistics, Johns Hopkins University, 615 N Wolfe St, Baltimore, MD 21205, USA
    Bioinformatics 19:889-90. 2003
    R/qtl is an extensible, interactive environment for mapping quantitative trait loci (QTLs) in experimental populations derived from inbred lines...
  4. ncbi Genome-wide association studies of 14 agronomic traits in rice landraces
    Xuehui Huang
    National Center for Gene Research, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
    Nat Genet 42:961-7. 2010
    ....
  5. pmc Transcriptome genetics using second generation sequencing in a Caucasian population
    Stephen B Montgomery
    Department of Genetic Medicine and Development, University of Geneva Medical School, Geneva, 1211 Switzerland
    Nature 464:773-7. 2010
    ..Correlation with SNPs (small nucleotide polymorphisms) leads to a larger discovery of eQTLs (expression quantitative trait loci) than with arrays...
  6. pmc Variance component model to account for sample structure in genome-wide association studies
    Hyun Min Kang
    Center for Statistical Genetics, Department of Biostatistics, University of Michigan, Ann Arbor, Michigan, USA
    Nat Genet 42:348-54. 2010
    ..We find that EMMAX outperforms both principal component analysis and genomic control in correcting for sample structure...
  7. pmc Development and characterization of a high density SNP genotyping assay for cattle
    Lakshmi K Matukumalli
    Department of Bioinformatics and Computational Biology, George Mason University, Manassas, Virginia, United States of America
    PLoS ONE 4:e5350. 2009
    ..use of large-scale high-density single nucleotide polymorphism (SNP) genotyping for the identification of quantitative trait loci (QTL) and for marker-assisted selection in model and agricultural species...
  8. pmc Abundant quantitative trait loci exist for DNA methylation and gene expression in human brain
    J Raphael Gibbs
    Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Genet 6:e1000952. 2010
    ..We find an abundance of genetic cis regulation of mRNA expression and show for the first time abundant quantitative trait loci for DNA CpG methylation across the genome...
  9. pmc Trait-associated SNPs are more likely to be eQTLs: annotation to enhance discovery from GWAS
    Dan L Nicolae
    Department of Medicine, University of Chicago, Chicago, Illinois, United States of America
    PLoS Genet 6:e1000888. 2010
    ....
  10. pmc DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines
    Jordana T Bell
    Department of Human Genetics, The University of Chicago, Chicago, IL 60637, USA
    Genome Biol 12:R10. 2011
    ..Here we measured methylation levels at 22,290 CpG dinucleotides in lymphoblastoid cell lines from 77 HapMap Yoruba individuals, for which genome-wide gene expression and genotype data were also available...
  11. ncbi Initial sequencing and comparative analysis of the mouse genome
    Robert H Waterston
    Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St Louis, Missouri 63108, USA
    Nature 420:520-62. 2002
    ....
  12. pmc Genetics and beyond--the transcriptome of human monocytes and disease susceptibility
    Tanja Zeller
    Medizinische Klinik und Poliklinik, Johannes Gutenberg Universitat Mainz, Mainz, Germany
    PLoS ONE 5:e10693. 2010
    ....
  13. ncbi The genetic architecture of maize flowering time
    Edward S Buckler
    U S Department of Agriculture USDA Agricultural Research Service USDA ARS, USA
    Science 325:714-8. 2009
    ..a million plants were assayed in eight environments but showed no evidence for any single large-effect quantitative trait loci (QTLs)...
  14. pmc Patterns of cis regulatory variation in diverse human populations
    Barbara E Stranger
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, UK
    PLoS Genet 8:e1002639. 2012
    ..We also identify 5,691 expression quantitative trait loci (eQTLs) after controlling for both non-genetic factors and population admixture and observe that half of ..
  15. pmc Genome-wide association analysis of metabolic traits in a birth cohort from a founder population
    Chiara Sabatti
    Department of Human Genetics and Los Angeles, Los Angeles, California 90095, USA
    Nat Genet 41:35-46. 2009
    ..The association observed between low-density lipoprotein and an infrequent variant in AR suggests the potential of such a cohort for identifying associations with both common, low-impact and rarer, high-impact quantitative trait loci.
  16. pmc DNase I sensitivity QTLs are a major determinant of human expression variation
    Jacob F Degner
    Department of Human Genetics, University of Chicago, Chicago, Illinois 60637, USA
    Nature 482:390-4. 2012
    The mapping of expression quantitative trait loci (eQTLs) has emerged as an important tool for linking genetic variation to changes in gene regulation...
  17. pmc Genetics of gene expression in primary immune cells identifies cell type-specific master regulators and roles of HLA alleles
    Benjamin P Fairfax
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    Nat Genet 44:502-10. 2012
    ..primary monocytes and B cells, we identify new predominantly cell type-specific cis and trans expression quantitative trait loci (eQTLs), including multi-locus trans associations to LYZ and KLF4 in monocytes and B cells, respectively...
  18. pmc Common regulatory variation impacts gene expression in a cell type-dependent manner
    Antigone S Dimas
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, CB10 1HH, Cambridge, UK
    Science 325:1246-50. 2009
    ..80% of regulatory variants operating in a cell type-specific manner, and identified multiple expressive quantitative trait loci (eQTLs) per gene, unique or shared among cell types and positively correlated with the number of ..
  19. ncbi Genome-wide association study of leaf architecture in the maize nested association mapping population
    Feng Tian
    Institute for Genomic Diversity, Cornell University, Ithaca, New York, USA
    Nat Genet 43:159-62. 2011
    ..These results demonstrate that the use of GWAS with specially designed mapping populations is effective in uncovering the basis of key agronomic traits...
  20. pmc Mapping the genetic architecture of gene expression in human liver
    Eric E Schadt
    Rosetta Inpharmatics, Seattle, Washington, United States of America
    PLoS Biol 6:e107. 2008
    ..We also identify SORT1 and CELSR2 as candidate susceptibility genes for a locus recently associated with coronary artery disease and plasma low-density lipoprotein cholesterol levels in the process...
  21. pmc The architecture of gene regulatory variation across multiple human tissues: the MuTHER study
    Alexandra C Nica
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom
    PLoS Genet 7:e1002003. 2011
    ..Our results underline the need to account for the complexity of eQTL tissue-specificity in an effort to assess consequences of such variants for complex traits...
  22. pmc Matrix eQTL: ultra fast eQTL analysis via large matrix operations
    Andrey A Shabalin
    Department of Biostatistics, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
    Bioinformatics 28:1353-8. 2012
    Expression quantitative trait loci (eQTL) analysis links variations in gene expression levels to genotypes...
  23. ncbi A mutation creating a potential illegitimate microRNA target site in the myostatin gene affects muscularity in sheep
    Alex Clop
    Unit of Animal Genomics, Department of Animal Production, Faculty of Veterinary Medicine and Centre for Biomedical Integrative Genoproteomics, University of Liège B43, 20 Boulevard de Colonster, 4000 Liege, Belgium
    Nat Genet 38:813-8. 2006
    ..Analysis of SNP databases for humans and mice demonstrates that mutations creating or destroying putative miRNA target sites are abundant and might be important effectors of phenotypic variation...
  24. pmc High-resolution mapping of expression-QTLs yields insight into human gene regulation
    Jean Baptiste Veyrieras
    Department of Human Genetics, The University of Chicago, Chicago, IL, USA
    PLoS Genet 4:e1000214. 2008
    Recent studies of the HapMap lymphoblastoid cell lines have identified large numbers of quantitative trait loci for gene expression (eQTLs)...
  25. ncbi Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice
    Weiya Xue
    National Key Laboratory of Crop Genetic Improvement, National Centre of Plant Gene Research Wuhan, Huazhong Agricultural University, Wuhan 430070, China
    Nat Genet 40:761-7. 2008
    ..Natural mutants with reduced function enable rice to be cultivated in temperate and cooler regions. Thus, Ghd7 has played crucial roles for increasing productivity and adaptability of rice globally...
  26. ncbi Mapping complex disease traits with global gene expression
    William Cookson
    National Heart and Lung Institute, Imperial College London, London SW3 6LY, UK
    Nat Rev Genet 10:184-94. 2009
    ..Although there are limitations to current eQTL maps, understanding of disease will be enhanced with novel technologies and international efforts that extend to a wide range of new samples and tissues...
  27. pmc Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease
    Jeffrey C Barrett
    Bioinformatics and Statistical Genetics, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK
    Nat Genet 40:955-62. 2008
    ..The expanded molecular understanding of the basis of this disease offers promise for informed therapeutic development...
  28. ncbi A large-scale genome-wide association study of Asian populations uncovers genetic factors influencing eight quantitative traits
    Yoon Shin Cho
    Center for Genome Science, National Institute of Health, Seoul, Korea
    Nat Genet 41:527-34. 2009
    ..2 x 10(-3), P = 1.4 x 10(-7) and P = 6.0 x 10(-4), respectively). This large-scale GWA analysis of well-characterized Korean population-based samples highlights previously unknown biological pathways...
  29. pmc Loci influencing lipid levels and coronary heart disease risk in 16 European population cohorts
    Yurii S Aulchenko
    1 Department of Epidemiology and Biostatistics, Erasmus University Medical Center, P O Box 2040, 3000 CA Rotterdam, The Netherlands 2 These authors contributed equally to this work
    Nat Genet 41:47-55. 2009
    ..001) and coronary heart disease incidence (P = 0.04). The genetic risk score improves the screening of high-risk groups of dyslipidemia over classical risk factors...
  30. pmc Extension of the bayesian alphabet for genomic selection
    David Habier
    Department of Animal Science and Center for Integrated Animal Genomics, Iowa State University, Ames, IA 50011, USA
    BMC Bioinformatics 12:186. 2011
    ..The methods were compared in terms of inference of the number of QTL and accuracy of genomic estimated breeding values (GEBVs), using simulated scenarios and real data from North American Holstein bulls...
  31. pmc Six new loci associated with body mass index highlight a neuronal influence on body weight regulation
    Cristen J Willer
    Genetic Investigation of ANthropometric Traits Consortium
    Nat Genet 41:25-34. 2009
    ..Several of the likely causal genes are highly expressed or known to act in the central nervous system (CNS), emphasizing, as in rare monogenic forms of obesity, the role of the CNS in predisposition to obesity...
  32. pmc Trans-eQTLs reveal that independent genetic variants associated with a complex phenotype converge on intermediate genes, with a major role for the HLA
    Rudolf S N Fehrmann
    Department of Genetics, University Medical Center Groningen and University of Groningen, Groningen, The Netherlands
    PLoS Genet 7:e1002197. 2011
    ..Therefore, these trans-eQTLs could well represent some of the intermediate genes that connect genetic variants with their eventual complex phenotypic outcomes...
  33. pmc Gene expression in skin and lymphoblastoid cells: Refined statistical method reveals extensive overlap in cis-eQTL signals
    Jun Ding
    Center for Statistical Genetics, Department of Biostatistics, University of Michigan School of Public Health, Ann Arbor, 48109, USA
    Am J Hum Genet 87:779-89. 2010
    ....
  34. pmc High-throughput genotyping by whole-genome resequencing
    Xuehui Huang
    National Center for Gene Research and Institute of Plant Physiology and Ecology, Shanghai Institutes of Biological Sciences, Chinese Academy of Sciences, Shanghai 200233, China
    Genome Res 19:1068-76. 2009
    ....
  35. pmc The impact of genetic relationship information on genome-assisted breeding values
    D Habier
    Department of Animal Science and Center for Integrated Animal Genomics, Iowa State University, Ames, Iowa 50011, USA
    Genetics 177:2389-97. 2007
    ..The method of choice was Bayes-B; FR-LS should be investigated further, whereas RR-BLUP cannot be recommended...
  36. ncbi Genetic properties of the maize nested association mapping population
    Michael D McMullen
    United States Department of Agriculture Agriculture Research Service USDA ARS, USA
    Science 325:737-40. 2009
    ..This implies that pericentromeric regions may contribute disproportionally to heterosis...
  37. pmc Genevar: a database and Java application for the analysis and visualization of SNP-gene associations in eQTL studies
    Tsun Po Yang
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1HH, UK
    Bioinformatics 26:2474-6. 2010
    ..Genevar allows researchers to investigate expression quantitative trait loci (eQTL) associations within a gene locus of interest in real time...
  38. pmc Identification, replication, and functional fine-mapping of expression quantitative trait loci in primary human liver tissue
    Federico Innocenti
    Cancer Research Center, Committee on Clinical Pharmacology and Pharmacogenomics, Department of Medicine, The University of Chicago, Chicago, Illinois, United States of America
    PLoS Genet 7:e1002078. 2011
    The discovery of expression quantitative trait loci ("eQTLs") can help to unravel genetic contributions to complex traits...
  39. pmc Dissecting the regulatory architecture of gene expression QTLs
    Daniel J Gaffney
    Department of Human Genetics, University of Chicago, 920 E58th Street, Chicago, IL 60637, USA
    Genome Biol 13:R7. 2012
    Expression quantitative trait loci (eQTLs) are likely to play an important role in the genetics of complex traits; however, their functional basis remains poorly understood...
  40. pmc Dissection of genetically complex traits with extremely large pools of yeast segregants
    Ian M Ehrenreich
    Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08540, USA
    Nature 464:1039-42. 2010
    ..Our method should have broad applications in yeast and can be extended to other organisms...
  41. pmc Identification of several small main-effect QTLs and a large number of epistatic QTLs for drought tolerance related traits in groundnut (Arachis hypogaea L.)
    K Ravi
    International Crops Research Institute for the Semi Arid Tropics, Patancheru, India
    Theor Appl Genet 122:1119-32. 2011
    ..This study suggests deployment of modern approaches like marker-assisted recurrent selection or genomic selection instead of marker-assisted backcrossing approach for breeding for drought tolerance in groundnut...
  42. ncbi Variants modulating the expression of a chromosome domain encompassing PLAG1 influence bovine stature
    Latifa Karim
    Unit of Animal Genomics, Interdisciplinary Institute of Applied Genomics GIGA R and Faculty of Veterinary Medicine, University of Liège B34, Liege, Belgium
    Nat Genet 43:405-13. 2011
    ..By performing expression QTL analyses, we identified a splice site variant in CHCHD7 and exploited this naturally occurring null allele to exclude CHCHD7 as single causative gene...
  43. pmc Genome-wide association study identifies Loci for body composition and structural soundness traits in pigs
    Bin Fan
    Department of Animal Science and Center for Integrated Animal Genomics, Iowa State University, Ames, Iowa, United States of America
    PLoS ONE 6:e14726. 2011
    ..The recent completion of the swine genome sequencing project and development of a high density porcine SNP array has made genome-wide association (GWA) studies feasible in pigs...
  44. pmc Sequence-based characterization of structural variation in the mouse genome
    Binnaz Yalcin
    The Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford OX3 7BN, UK
    Nature 477:326-9. 2011
    ..We identified 24 SVs that disrupt coding exons, acting as rare variants of large effect on gene function. One-third of the genes so affected have immunological functions...
  45. pmc ProbABEL package for genome-wide association analysis of imputed data
    Yurii S Aulchenko
    Department of Epidemiology, Erasmus MC, Postbus 2040, 3000 CA Rotterdam, The Netherlands
    BMC Bioinformatics 11:134. 2010
    ..Currently, imputed single nucleotide polymorphisms (SNP) data are frequently used in GWA analyzes. Correct analysis of imputed data calls for the implementation of specific methods which take genotype imputation uncertainty into account...
  46. ncbi Cytokinin oxidase regulates rice grain production
    Motoyuki Ashikari
    Bioscience and Biotechnology Center, Nagoya University, Nagoya 464 8601, Japan
    Science 309:741-5. 2005
    Most agriculturally important traits are regulated by genes known as quantitative trait loci (QTLs) derived from natural allelic variations...
  47. ncbi Genome-wide association yields new sequence variants at seven loci that associate with measures of obesity
    Gudmar Thorleifsson
    deCODE Genetics, Reykjavik, Iceland
    Nat Genet 41:18-24. 2009
    ..6 x 10(-7). This includes previously identified variants close to or in the FTO, MC4R, BDNF and SH2B1 genes, in addition to variants at seven loci not previously connected with obesity...
  48. pmc Unraveling the regulatory mechanisms underlying tissue-dependent genetic variation of gene expression
    Jingyuan Fu
    Department of Genetics, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands
    PLoS Genet 8:e1002431. 2012
    ..6×10(-10)). Our study yields new insights into the genetic basis of tissue-dependent expression and suggests that complex trait associated genetic variants have even more complex regulatory effects than previously anticipated...
  49. pmc Revealing the architecture of gene regulation: the promise of eQTL studies
    Yoav Gilad
    Department of Human Genetics, University of Chicago, Chicago, IL 60637, USA
    Trends Genet 24:408-15. 2008
    Expression quantitative trait loci (eQTL) mapping studies have become a widely used tool for identifying genetic variants that affect gene regulation...
  50. pmc A hidden markov model combining linkage and linkage disequilibrium information for haplotype reconstruction and quantitative trait locus fine mapping
    Tom Druet
    Unit of Animal Genomics, GIGA Research and Department of Animal Production, Faculty of Veterinary Medicine, University of Liege, Belgium
    Genetics 184:789-98. 2010
    ..We show that these cluster states can directly be used to fine map QTL. The method is computationally effective at handling large data sets based on high-density SNP panels...
  51. pmc Genomewide SNP variation reveals relationships among landraces and modern varieties of rice
    Kenneth L McNally
    International Rice Research Institute, DAPO Box 7777, Metro Manila 1301, The Philippines
    Proc Natl Acad Sci U S A 106:12273-8. 2009
    ..These comprehensive SNP data provide a foundation for deep exploration of rice diversity and gene-trait relationships and their use for future rice improvement...
  52. pmc Advances in quantitative trait analysis in yeast
    Gianni Liti
    Institute of Research on Cancer and Ageing of Nice IRCAN, CNRS UMR 7284 INSERM U1081, Faculte de Medecine, Universite de Nice Sophia Antipolis, Nice, France
    PLoS Genet 8:e1002912. 2012
    ..Not only are quantitative trait loci (QTL) being mapped with high resolution down to the nucleotide, for the first time QTLs of modest effect ..
  53. pmc Association mapping of kernel size and milling quality in wheat (Triticum aestivum L.) cultivars
    Flavio Breseghello
    Department of Plant Breeding and Genetics, Cornell University, Ithaca, New York 14853, USA
    Genetics 172:1165-77. 2006
    ..Our results demonstrated that association mapping could complement and enhance previous QTL information for marker-assisted selection...
  54. pmc Trait variation in yeast is defined by population history
    Jonas Warringer
    Department of Cell and Molecular Biology, University of Gothenburg, Gothenburg, Sweden
    PLoS Genet 7:e1002111. 2011
    ..Overall, this study represents a step towards an in-depth understanding of the causal relationship between co-variation in ecology, selection pressure, natural traits, molecular mechanism, and alleles in a key model organism...
  55. pmc Identification of novel causative genes determining the complex trait of high ethanol tolerance in yeast using pooled-segregant whole-genome sequence analysis
    Steve Swinnen
    Laboratory of Molecular Cell Biology, Institute of Botany and Microbiology, KU Leuven, Leuven Heverlee, Flanders, Belgium
    Genome Res 22:975-84. 2012
    ..We have applied pooled-segregant whole-genome sequence analysis to map all quantitative trait loci (QTL) determining high ethanol tolerance...
  56. pmc A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk
    Matthias Heinig
    Max Delbrück Center for Molecular Medicine MDC, Berlin, Germany
    Nature 467:460-4. 2010
    ..15), which was one of five single nucleotide polymorphisms in this region associated with EBI2 (GPR183) expression. These data implicate IRF7 network genes and their regulatory locus in the pathogenesis of T1D...
  57. pmc SCAN: SNP and copy number annotation
    Eric R Gamazon
    Department of Medicine, The University of Chicago, Chicago, IL, USA
    Bioinformatics 26:259-62. 2010
    ..by combining several approaches, involving not only publicly available physical and functional annotations but also multilocus linkage disequilibrium (LD) annotations as well as annotations of expression quantitative trait loci (eQTLs).
  58. pmc The impact of genetic architecture on genome-wide evaluation methods
    Hans D Daetwyler
    The Roslin Institute and Royal Dick School of Veterinary Studies, The University of Edinburgh, Roslin EH25 9PS, United Kingdom
    Genetics 185:1021-31. 2010
    ..using stochastic simulation across three effective population sizes and a wide range of numbers of quantitative trait loci (N(QTL)). GBLUP had a constant accuracy, for a given heritability and sample size, regardless of N(QTL)...
  59. ncbi Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice
    Yongqing Jiao
    State Key Laboratory of Plant Genomics and National Center for Plant Gene Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China
    Nat Genet 42:541-4. 2010
    ..Our study suggests that OsSPL14 may help improve rice grain yield by facilitating the breeding of new elite rice varieties...
  60. ncbi A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig
    Anne Sophie Van Laere
    Department of Animal Breeding and Genetics, Swedish University of Agricultural Sciences, Uppsala University, BMC, Box 597, SE 751 24 Uppsala, Sweden
    Nature 425:832-6. 2003
    ..background indicating that they are controlled by environmental factors as well as an unknown number of quantitative trait loci (QTLs)...
  61. pmc Candidate causal regulatory effects by integration of expression QTLs with complex trait genetic associations
    Alexandra C Nica
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom
    PLoS Genet 6:e1000895. 2010
    ..Expression quantitative trait loci (eQTLs) have been implicated in disease associations through overlaps between eQTLs and GWAS signals...
  62. pmc Data and theory point to mainly additive genetic variance for complex traits
    William G Hill
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh, United Kingdom
    PLoS Genet 4:e1000008. 2008
    ..We conclude that interactions at the level of genes are not likely to generate much interaction at the level of variance...
  63. pmc Genomewide rapid association using mixed model and regression: a fast and simple method for genomewide pedigree-based quantitative trait loci association analysis
    Yurii S Aulchenko
    Department of Epidemiology and Biostatistics, Erasmus MC, 3000 CA Rotterdam, The Netherlands
    Genetics 177:577-85. 2007
    For pedigree-based quantitative trait loci (QTL) association analysis, a range of methods utilizing within-family variation such as transmission-disequilibrium test (TDT)-based methods have been developed...
  64. ncbi Genetics of gene expression and its effect on disease
    Valur Emilsson
    deCODE Genetics, 101 Reykjavik, Iceland
    Nature 452:423-8. 2008
    ..A core network module in humans and mice was identified that is enriched for genes involved in the inflammatory and immune response and has been found to be causally associated to obesity-related traits...
  65. pmc Genetic design and statistical power of nested association mapping in maize
    Jianming Yu
    Institute for Genomic Diversity, Cornell University, Ithaca, New York 14853 2703, USA
    Genetics 178:539-51. 2008
    ..With 5000 genotypes, 30-79% of the simulated quantitative trait loci (QTL) were precisely identified...
  66. pmc Tissue-specific expression and regulation of sexually dimorphic genes in mice
    Xia Yang
    Department of Medicine, David Geffen School of Medicine, University of California, Los Angeles, California 90095, USA
    Genome Res 16:995-1004. 2006
    ..genes, as the transcript levels of a large number of these genes were controlled by several expression quantitative trait loci (eQTL) hotspots that exhibited tissue-specific control...
  67. pmc Gramene database in 2010: updates and extensions
    Ken Youens-Clark
    Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA
    Nucleic Acids Res 39:D1085-94. 2011
    ..last decade to become a robust resource for plant genomics hosting a wide array of data sets including quantitative trait loci (QTL), metabolic pathways, genetic diversity, genes, proteins, germplasm, literature, ontologies and a ..
  68. pmc Genetic architecture of complex traits and accuracy of genomic prediction: coat colour, milk-fat percentage, and type in Holstein cattle as contrasting model traits
    Ben J Hayes
    Biosciences Research Division, Department of Primary Industries Victoria, Melbourne, Victoria, Australia
    PLoS Genet 6:e1001139. 2010
    ....
  69. ncbi The protein kinase Pstol1 from traditional rice confers tolerance of phosphorus deficiency
    Rico Gamuyao
    International Rice Research Institute, DAPO Box 7777 Metro, Manila 1301, Philippines
    Nature 488:535-9. 2012
    ..Introgression of this quantitative trait locus into locally adapted rice varieties in Asia and Africa is expected to considerably enhance productivity under low phosphorus conditions...
  70. pmc Gene-environment interaction in yeast gene expression
    Erin N Smith
    Lewis Sigler Institute for Integrative Genomics and Department of Ecology and Evolutionary Biology, Princeton University, Princeton, New Jersey, United States of America
    PLoS Biol 6:e83. 2008
    ..These observations will guide the design of studies aimed at understanding the genetic basis of complex traits...
  71. pmc Common variants at 30 loci contribute to polygenic dyslipidemia
    Sekar Kathiresan
    Cardiovascular Research Center and Cardiology Division, Massachusetts General Hospital, Boston, Massachusetts 02114, USA
    Nat Genet 41:56-65. 2009
    ..These results suggest that the cumulative effect of multiple common variants contributes to polygenic dyslipidemia...
  72. ncbi Drought stress and tropical maize: QTL-by-environment interactions and stability of QTLs across environments for yield components and secondary traits
    Rainer Messmer
    ETH Zurich, Institute of Plant Sciences, 8092 Zurich, Switzerland
    Theor Appl Genet 119:913-30. 2009
    ..Those regions are clear targets for future marker-assisted breeding, and our results confirm that the best approach to breeding for drought tolerance includes selection under water stress...
  73. pmc Predicting quantitative traits with regression models for dense molecular markers and pedigree
    Gustavo de Los Campos
    Department of Animal Sciences, University of Wisconsin, Madison, Wisconsin 53706, USA
    Genetics 182:375-85. 2009
    ..Results indicate that inclusion of markers in the regression further improved the predictive ability of models. An R program that implements the proposed model is freely available...
  74. pmc A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies
    Oliver Stegle
    Max Planck Institutes Tübingen, Tubingen, Germany
    PLoS Comput Biol 6:e1000770. 2010
    ..Here, we present VBQTL, a probabilistic approach for mapping expression quantitative trait loci (eQTLs) that jointly models contributions from genotype as well as known and hidden confounding factors...
  75. pmc Linkage and association mapping of Arabidopsis thaliana flowering time in nature
    Benjamin Brachi
    Laboratoire Génétique et Evolution des Populations Végétales, Unité Mixte de Recherche CNRS 8016, Université des Sciences et Technologies de Lille 1, Villeneuve d Ascq, France
    PLoS Genet 6:e1000940. 2010
    ..Instead, we found a prevalence of genes involved in the regulation of the plant circadian clock. Furthermore, we identified new genomic regions lacking obvious candidate genes...
  76. pmc Identification of an imprinted master trans regulator at the KLF14 locus related to multiple metabolic phenotypes
    Kerrin S Small
    Department of Twin Research and Genetic Epidemiology, King s College London, London, UK
    Nat Genet 43:561-4. 2011
    ..This trans-eQTL network provides a mechanistic understanding of the effect of the KLF14 locus on metabolic disease risk and offers a potential model for other complex traits...
  77. ncbi Epistasis: too often neglected in complex trait studies?
    Orjan Carlborg
    Linnaeus Centre for Bioinformatics, Uppsala University, BMC, Box 598, SE 751 24 Uppsala, Sweden
    Nat Rev Genet 5:618-25. 2004
  78. ncbi Mapping genes for complex traits in domestic animals and their use in breeding programmes
    Michael E Goddard
    Department of Agriculture and Food Systems, University of Melbourne, Royal Parade, Parkville 3010, Australia
    Nat Rev Genet 10:381-91. 2009
    ..This approach is expected to double the rate of genetic improvement per year in many livestock systems...
  79. ncbi Rare genetic variation at Zea mays crtRB1 increases beta-carotene in maize grain
    Jianbing Yan
    International Maize and Wheat Improvement Center, Texcoco, Mexico
    Nat Genet 42:322-7. 2010
    ....
  80. ncbi A putative ABC transporter confers durable resistance to multiple fungal pathogens in wheat
    Simon G Krattinger
    Institute of Plant Biology, University of Zurich, Zollikerstrasse 107, 8008 Zurich, Switzerland
    Science 323:1360-3. 2009
    ..Alleles of Lr34 conferring resistance or susceptibility differ by three genetic polymorphisms. The Lr34 gene, which functions in the adult plant, stimulates senescence-like processes in the flag leaf tips and edges...
  81. ncbi Maize association population: a high-resolution platform for quantitative trait locus dissection
    Sherry A Flint-Garcia
    US Department of Agriculture Agricultural Research Service, Plant Genetics Research Unit, Columbia, MO 65211, USA
    Plant J 44:1054-64. 2005
    ..This new association population has the potential to identify QTL with small effects, which will aid in dissecting complex traits and in planning future projects to exploit the rich diversity present in maize...
  82. ncbi Array-based high-throughput DNA markers for crop improvement
    P K Gupta
    Molecular Biology Laboratory, Department of Genetics and Plant Breeding, Ch Charan Singh University, Meerut, Uttar Pradesh, India
    Heredity (Edinb) 101:5-18. 2008
    ..the markers of choice for the future and are already being used for construction of high-density maps, quantitative trait loci (QTL) mapping (including expression QTLs) and genetic diversity analysis with a limited expense in terms ..
  83. pmc Revealing the genetic structure of a trait by sequencing a population under selection
    Leopold Parts
    The Wellcome Trust Sanger Institute, Hinxton, United Kingdom
    Genome Res 21:1131-8. 2011
    ....
  84. pmc Genetic control of human brain transcript expression in Alzheimer disease
    Jennifer A Webster
    Neurogenomics Division, Translational Genomics Research Institute, Phoenix, AZ 85004, USA
    Am J Hum Genet 84:445-58. 2009
    ..We suggest that studying the transcriptome as a quantitative endo-phenotype has greater power for discovering risk SNPs influencing expression than the use of discrete diagnostic categories such as presence or absence of disease...
  85. pmc SNPexp - A web tool for calculating and visualizing correlation between HapMap genotypes and gene expression levels
    Kristian Holm
    Norwegian PSC Research Center, Clinic for Specialized Medicine and Surgery, Oslo University Hospital Rikshospitalet, Norway
    BMC Bioinformatics 11:600. 2010
    ....
  86. pmc R/qtl: high-throughput multiple QTL mapping
    Danny Arends
    Groningen Bioinformatics Centre, University of Groningen, Groningen, The Netherlands
    Bioinformatics 26:2990-2. 2010
    R/qtl is free and powerful software for mapping and exploring quantitative trait loci (QTL). R/qtl provides a fully comprehensive range of methods for a wide range of experimental cross types...
  87. pmc Learning a prior on regulatory potential from eQTL data
    Su In Lee
    Computer Science Department, Stanford University, Stanford, California, United States of America
    PLoS Genet 5:e1000358. 2009
    ....
  88. pmc Whole genome association study of brain-wide imaging phenotypes for identifying quantitative trait loci in MCI and AD: A study of the ADNI cohort
    Li Shen
    Center for Neuroimaging, Department of Radiology and Imaging Sciences, Indiana University School of Medicine, 950 West Walnut Street R2 E124, Indianapolis, IN 46202, USA
    Neuroimage 53:1051-63. 2010
    ..whole brain approach to investigate genetic effects on neuroimaging phenotypes for identifying quantitative trait loci is described. The Alzheimer's Disease Neuroimaging Initiative 1...
  89. ncbi Hd3a, a rice ortholog of the Arabidopsis FT gene, promotes transition to flowering downstream of Hd1 under short-day conditions
    Shoko Kojima
    Institute of the Society for Techno Innovation of Agriculture, Forestry and Fisheries, Tsukuba, Ibaraki, 305 0854 Japan
    Plant Cell Physiol 43:1096-105. 2002
    ....
  90. pmc Genetic analysis of human traits in vitro: drug response and gene expression in lymphoblastoid cell lines
    Edwin Choy
    Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
    PLoS Genet 4:e1000287. 2008
    ..While LCLs are a promising model for pharmacogenetic experiments, biological noise and in vitro artifacts may reduce power and have the potential to create spurious association due to confounding...
  91. pmc Genetic architecture of quantitative traits in mice, flies, and humans
    Jonathan Flint
    Wellcome Trust Centre for Human Genetics, Oxford, UK
    Genome Res 19:723-33. 2009
    ..Despite substantial advances in mapping quantitative trait loci, the identification of the quantitative trait genes and ultimately the sequence variants has proved more ..
  92. pmc Construction of a 10,000-marker ultradense genetic recombination map of potato: providing a framework for accelerated gene isolation and a genomewide physical map
    Hans van Os
    Laboratory of Plant Breeding, Wageningen University, The Netherlands
    Genetics 173:1075-87. 2006
    ..potatogenome.net)...
  93. pmc An integrative genomics approach to infer causal associations between gene expression and disease
    Eric E Schadt
    Rosetta Inpharmatics, Seattle, Washington 98109, USA
    Nat Genet 37:710-7. 2005
    ..We also demonstrate the utility of this approach by identifying and experimentally validating the involvement of three new genes in susceptibility to obesity...
  94. pmc Genome-wide association scan shows genetic variants in the FTO gene are associated with obesity-related traits
    Angelo Scuteri
    Unità Operativa Geriatria, Istituto per la Patologia Endocrina e Metabolica, Rome, Italy
    PLoS Genet 3:e115. 2007
    ..These changes could have a significant impact on the risk of obesity-related morbidity in the general population...
  95. ncbi Genome-wide association studies for complex traits: consensus, uncertainty and challenges
    Mark I McCarthy
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    Nat Rev Genet 9:356-69. 2008
    ....
  96. pmc Association mapping of local climate-sensitive quantitative trait loci in Arabidopsis thaliana
    Yan Li
    Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 107:21199-204. 2010
    ..Genome-wide association mapping was carried out with 213,497 SNPs. A total of 12 FT candidate quantitative trait loci (QTL) were fine-mapped in two independent studies, including 4 located within ±10 kb of previously ..
  97. pmc Common variants near MC4R are associated with fat mass, weight and risk of obesity
    Ruth J F Loos
    MRC Epidemiology Unit, Addenbrooke s Hospital, Cambridge CB2 0QQ, UK
    Nat Genet 40:768-75. 2008
    ....
  98. pmc A genome-wide association study identifies protein quantitative trait loci (pQTLs)
    David Melzer
    Department of Epidemiology and Public Health, Institute of Biomedical and Clinical Sciences, Peninsula College of Medicine and Dentistry, University of Exeter, Devon, United Kingdom
    PLoS Genet 4:e1000072. 2008
    ..These include the presence of strong genetic effects in cis locations. The identification of protein quantitative trait loci (pQTLs) may be a powerful complementary method of improving our understanding of disease pathways.
  99. pmc PolymiRTS Database: linking polymorphisms in microRNA target sites with complex traits
    Lei Bao
    Department of Molecular Sciences, Memphis, TN 38163, USA
    Nucleic Acids Res 35:D51-4. 2007
    ..It is a resource for studying PolymiRTSs and their implications in phenotypic variations. PolymiRTS database can be accessed at http://compbio.utmem.edu/miRSNP/...
  100. pmc Ehd1, a B-type response regulator in rice, confers short-day promotion of flowering and controls FT-like gene expression independently of Hd1
    Kazuyuki Doi
    Plant Breeding Laboratory, Faculty of Agriculture, Kyushu University, Fukuoka 812 8581, Japan
    Genes Dev 18:926-36. 2004
    ..Microarray analysis further revealed a few MADS box genes downstream of Ehd1. Our results indicate that a novel two-component signaling cascade is integrated into the conserved pathway in the photoperiodic control of flowering in rice...
  101. ncbi Genetic basis of individual differences in the response to small-molecule drugs in yeast
    Ethan O Perlstein
    Howard Hughes Medical Institute, Broad Institute of Harvard and MIT, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nat Genet 39:496-502. 2007
    ..Our results provide a step toward a systematic understanding of small-molecule drug action in genetically distinct individuals...

Research Grants71

  1. Genetic variation and regulatory networks: Mechanisms and complexity
    DANA PE ER; Fiscal Year: 2009
    ..These tools will be made publicly available, including a friendly graphical user interface and visualization. ..
  2. Identification of Genetic and Epigenetic Alterations in Spondyloarthritis
    Tibor T Glant; Fiscal Year: 2013
    ..identified Pgis2 (on chromosome [Chr] 2, syntenic with human Chr9:SPA locus) as one of the most prominent quantitative trait loci (QTLs) that affects both the onset and severity of spondylitis...
  3. Genetics and Haloperidol Response
    Robert J Hitzemann; Fiscal Year: 2012
    ..Detailed SNP maps are necessary a) in order to align quantitative trait loci (QTL) haplotype structure with polymorphisms that may affect gene function e.g...
  4. MAPPING OF ARTHRITIS SUSCEPTIBILITY GENES
    Tibor T Glant; Fiscal Year: 2013
    ..A total of 29 genomic loci (Pgia1-Pgia29 ) controlling PGIA were identified. Many of these quantitative trait loci (QTLs) correlated with those identified in collagen-induced arthritis (CIA) in mice (mCia) and rats, ..
  5. Arsenic Exposure, Genetic Determinants and Diabetes Risk in a Family Study
    Ana Navas-Acien; Fiscal Year: 2013
    ..52. In a small linkage study, we detected potential quantitative trait loci associated with %MMA in areas of the genome close to methyltransferase genes...
  6. Genetic Vulnerability to Alcohol Withdrawal and Genetically Correlated Behaviors
    Kari J Buck; Fiscal Year: 2012
    ..b>Quantitative trait loci (QTL) are chromosome sites containing alleles (genes) that affect complex traits...
  7. Genetics of Alopecia Areata in the C3H/HeJ Mouse
    JOHN PAUL SUNDBERG; Fiscal Year: 2013
    ..disease), when combined with quantitative real time RT PCR (QPCR) for all genes within each of the 4 AA quantitative trait loci (QTLs) and haplotype mapping data based on total genomic sequencing (Sanger draft sequences), will be ..
  8. Genetic Analysis of Murine Chronic Hypoxia-Induced Pulmonary Hypertension
    William C Nichols; Fiscal Year: 2013
    ..analysis of chronic hypoxia-induced pulmonary hypertension;2) Perform conventional mapping to identify quantitative trait loci (QTLs) contributing to chronic hypoxia-induced PH...
  9. QTL and QTL Genes Underlying Lactation Performance
    Darryl L Hadsell; Fiscal Year: 2010
    ..In the bovine, there are quantitative trait loci (QTL) for milk volume present on all 29 autosomes...
  10. Statistical models to investigate long-distance QTL transcription regulation
    BARBARA ELIZABETH ENGELHARDT; Fiscal Year: 2011
    ..of single nucleotide polymorphisms (SNPs) is, for the most part, confined to local, or cis-, expression quantitative trait loci (eQTLs) in a small number of human tissues...
  11. Mapping Expression Quantitative Trait Loci with Next Generation Sequencing in SLE
    Min Chen; Fiscal Year: 2013
    ..Recent studies have suggested that expression quantitative trait loci (eQTL) mapping, an effective tool for the discovery of genetic footprints o transcription variations, may ..
  12. MOLECULAR PATHOLOGY OF CHRONIC LUNG DISEASE
    Craig Gerard; Fiscal Year: 2013
    ..We will map quantitative trait loci (QTLs) and potential candidate genes regulating the contribution of eosinophils to airway ..
  13. REGULATION OF APOB SECRETION IN INBRED MOUSE STRAINS
    Li Shin Huang; Fiscal Year: 2009
    ..Further genetic studies of two mouse strains identified two novel quantitative trait loci (QTL) on chromosomes 6 and 4 which have major effects on plasma apo B levels...
  14. Role of Darc-Chemokine Interaction in the Trafficking of Osteoclast Precursors
    Bouchra Edderkaoui; Fiscal Year: 2012
    ..Accordingly, studies in human and animal models have revealed evidence for the presence of several quantitative trait loci (QTL) that contribute to BMD variations in humans and experimental animals...
  15. Genetic Determinants of Physiological Responses to Fluoride in Bone
    Eric T Everett; Fiscal Year: 2012
    ..in an animal model using a whole genome approach, will be pursued in the following Specific Aims: SpA1: Quantitative trait loci (QTL) mapping will be performed using C57BL/6J and C3H/HeJ inbred mice as progenitor strains in a two ..
  16. Model Systems for PXE
    Jouni Uitto; Fiscal Year: 2013
    ..The first one focuses on identification of phenotypic modifier genes by mouse genomics through quantitative trait loci analysis...
  17. An Integrative Systems Genetics Approach to Nephrotic Syndrome
    MATTHEW GORDON SAMPSON; Fiscal Year: 2013
    ..or non-coding, regulatory genomic elements associated with NS will also be sought using an expression quantitative trait loci (eQTL) study...
  18. Statistical models to investigate long-distance QTL transcription regulation
    BARBARA ELIZABETH ENGELHARDT; Fiscal Year: 2013
    ..of single nucleotide polymorphisms (SNPs) is, for the most part, con ned to local, or cis-, expression quantitative trait loci (eQTLs) in a small number of human tissues...
  19. Genetics of Parkinsonism in a Special Population of Untreated Schizophrenia
    Gabriel Alejandro De Erausquin; Fiscal Year: 2013
    ..award period we will work on an Roi application to study the relationship of the proposed phenotype to quantitative trait loci (QTL)...
  20. Comprehensive studies of novel SNPs affecting warfarin dose in African Americans
    Minoli Perera; Fiscal Year: 2012
    ..To further evaluate regulation, we used a genome-wide bioinformatics tool (SCAN) to identify expression Quantitative Trait Loci (eQTLs), a method that has never been used to identify novel SNPs associated with warfarin dosing...
  21. Genetic Predisposition for Intimal Hyperplasia in Mice
    Renee C LeBoeuf; Fiscal Year: 2013
    ..doubled an F2 population between FVB (susceptible) and C57BL/6 (resistant) strains and identified 6 quantitative trait loci (QTL)...
  22. Genetic controls of mineral consumption
    Michael G Tordoff; Fiscal Year: 2013
    ..We have already identified several quantitative trait loci (QTLs) related to consumption of these minerals...
  23. Genetics of susceptibility to candidiasis
    Scott Filler; Fiscal Year: 2009
    ..Next, we used computational haplotype mapping to identify genomic regions--quantitative trait loci (QTLs)--that may contain genes whose variations are responsible for these strain-to-strain differences in ..
  24. GENETIC VULNERABILITY TO DRUGS OF ABUSE
    Kari J Buck; Fiscal Year: 2013
    ..The human homologs are now being studied in human populations by NIH intramural and other scientists. Quantitative trait loci (QTLs) are chromosome sites containing genes that influence a complex trait such as predisposition to ..
  25. Immunoregulation of Schistosomiasis
    Miguel J Stadecker; Fiscal Year: 2013
    ..Aim 3 is a forward genetic analysis to identify relevant quantitative trait loci taking advantage of unique congenic strains between BL/10 and BL/6 mice, which differ in only 5% of their ..
  26. The Role of Mpdz in Ethanol Withdrawal and Genetically Correlated Behaviors
    Kari J Buck; Fiscal Year: 2012
    ..b>Quantitative trait loci (QTLs) are chromosome sites containing alleles (genes) that influence a quantitative (complex) trait such ..
  27. ENVIRONMENT &GENETICS OF MONOCLONAL GAMMOPATHY OF UNCERTAIN SIGNIFICANCE (MGUS)
    Michael H Tomasson; Fiscal Year: 2012
    ..immunoglobulin isotype responses and monoclonal gammopathy (MGUS) development in mice;Specific Aim 2: Map quantitative trait loci (QTL) for MGUS/MM risk and identify somatic mutations associated with disease progression...
  28. Genes and Gene Networks Associated with Obesity and Diabetes
    Alan D Attie; Fiscal Year: 2013
    ..Specifically these studies have allowed us to: 1) identify expression quantitative trait loci (eQTLs); 2) identify "hotspots", or large sets of transcripts that appear to be co-regulated by a single ..
  29. Unbiased Forward Genetic Analysis of Virus/Host Interactions
    Richard L Thompson; Fiscal Year: 2010
    ..Forward genetic approaches permit the unbiased identification of Quantitative Trait Loci (QTL) of the host...
  30. Research Training: Mental Health Behavior Genetics
    John K Hewitt; Fiscal Year: 2013
    ..The application of biometrical, statistical, and quantitative genetic techniques and the development of quantitative trait loci methods allow the mapping and identification of genes that regulate complex traits...
  31. Genetic control over the gut microbiome composition
    Daniel Pomp; Fiscal Year: 2010
    ..a polygenic trait and that host genes controlling its composition can be identified by high- resolution quantitative trait loci (QTL) mapping...
  32. Cortical Excitability: Biomarker and Endophenotype in Combat Related PTSD
    Zhewu Wang; Fiscal Year: 2013
    ..Pairwise linkage disequilibrium (LD) will be estimated. The quantitative trait loci (QTL) approach will be applied to determine genetic markers that are strongly associated with the PTSD ..
  33. MOLECULAR GENETICS OF LYME ARTHRITIS SUSCEPTIBILITY
    Janis J Weis; Fiscal Year: 2013
    ..B. burgdorferi arthritis associated (Bbaa) Quantitative Trait Loci (QTL) on five chromosomes were previously identified, and reciprocal interval specific congenic lines (..
  34. QTL AND MICROARRAY MAPPING LEAD SENSITIVITY GENES
    Douglas M Ruden; Fiscal Year: 2013
    ..genes" that make an organism resistant to the behavioral and developmental effects of lead toxicity using quantitative trait loci (QTL) mapping techniques combined with microarray and sophisticated genetic analyses...
  35. System Biology Approach for Signaling Transduction Study of Complex Phenotypes
    Youli Zu; Fiscal Year: 2012
    ..availability of large protein-protein interaction, protein-DNA interaction data, and the expression quantitative trait loci (eQTL) mapping techniques provides a means to address these issues...
  36. Reducing genetic buffering to identify QTLs that affect cell shape and growth
    Kerry A Geiler-Samerotte; Fiscal Year: 2013
    ..chaperone inhibition reduces genetic buffering thereby increasing the power of mapping studies to detect quantitative trait loci (QTL) contributing to cell morphology and growth...
  37. Co-localizing Quantitative Trait Loci for Bone Mineral Density and HDL in Mice
    CHERYL LYNNE ACKERT-BICKNELL; Fiscal Year: 2013
    ..Two quantitative trait loci (QTL) for BMD have been identified on mouse Chromosome 1 and 8 that are coincident for QTL for serum HDL...
  38. Heritable variation of mRNA decay rates: An unappreciated source of gene express
    JOSHUA MICHAEL AKEY; Fiscal Year: 2013
    ..progress in characterizing patterns of transcript abundance among individuals and mapping gene expression quantitative trait loci, fundamental questions remain...
  39. In Vitro Dissection of Genetic Susceptibility to Prion Disease
    George A Carlson; Fiscal Year: 2011
    ..Based on the hypothesis that alternative alleles of many quantitative trait loci reflect either differences in level or expression or different affinities for interacting molecules, RNAi ..
  40. GENETICS OF ATHEROSCLEROSIS IN MEXICAN AMERICANS
    John Blangero; Fiscal Year: 2012
    ..Genotyping of all family members for >400 markers in a 10 centimorgan map is complete, and many quantitative trait loci (QTLs) for CVD risk factors have been detected and mapped...
  41. Revolutionizing preclinical detection of risk factors for idiosyncratic drug-indu
    David W Threadgill; Fiscal Year: 2010
    ..traits, such as DILI, results from the combined effects of genetic variations within genes termed "quantitative trait loci" (QTL)...
  42. Research Training - Developmental Behavioral Genetics
    Michael C Stallings; Fiscal Year: 2013
    ..The application of biometrical, statistical, and quantitative genetic techniques and the development of quantitative trait loci methods allow the mapping and identification of genes that regulate complex traits...
  43. Mouse Genetic Models for Alcohol Research
    Tamara J Phillips; Fiscal Year: 2013
    ..COLD-2, WSP-1, WSP-2, WSR-1, WSR-2, HDID-1, HDID-2, and 22 congenic strains (5 to be cryopreserved) for quantitative trait loci on chromosomes 1,4, 11 and 19]...
  44. Identification of Gender Specific BMD Candidate Gene in Chromosome 1
    Bouchra Edderkaoui; Fiscal Year: 2011
    ..Accordingly, gender specific BMD quantitative trait loci (QTL) have been identified in several chromosomes both in humans and animal models...
  45. Genetic control of hepatic fibrogenesis
    Michael D Wheeler; Fiscal Year: 2011
    ..that fibrosis susceptibility results from the combined effects of genetic variations within genes termed "quantitative trait loci" (QTL)...
  46. STRONG HEART FAMILY STUDY
    Shelley A Cole; Fiscal Year: 2011
    ..7). We will continue our linkage analyses and will do finer scale mapping to more precisely localize quantitative trait loci (QTLs) within targeted chromosomal regions...
  47. Globin Gene Expression in Sickle Cell Genotype-Specific iPS cells
    Martin H Steinberg; Fiscal Year: 2013
    ..differentiation, which includes the expected the spectrum of p-like globin gene expression;2) major HbF quantitative trait loci impact globin gene expression during embryonic, fetal, and adult erythropoiesis;3) patients with markedly ..
  48. Molecular Mechanisms of Social Behavior
    Anna V Kukekova; Fiscal Year: 2010
    ..These identified quantitative trait loci will be validated in extended sets of highly informative experimental pedigrees...
  49. Identification of Common Polymorphisms Affecting Angiogenesis
    ROBERT J D'AMATO; Fiscal Year: 2013
    ..We have determined that angiogenic responsiveness is controlled by many different "quantitative trait loci" (QTLs)...
  50. IBANGS Annual Meeting support
    John C Crabbe; Fiscal Year: 2013
    ..inbred strains, and gene finding methods including linkage and association analyses of major genes and quantitative trait loci. Members include faculty, postdoctoral fellows, and graduate and medical students in a wide variety of ..
  51. Genetic Architecture of Hsp90-buffered variation
    Suzannah Rutherford; Fiscal Year: 2009
    ..Our specific aims are to 1) localize deformed eye polymorphisms by SQTL (Suppressor of Quantitative Trait Loci) and deletion mapping to test the idea that varied genetic architectures for deformed eye arose in the ..
  52. Sensitized Screen in the Diversity Outcross Mouse Population
    STEVEN CARMEN MUNGER; Fiscal Year: 2013
    ..Regions of the genome that affect gene expression in the gonad (expression quantitative trait loci, or eQTL) will be identified from a combination of RNA-Seq expression and dense genotyping data...
  53. Genetic Determinants of Human Transcriptional Aging
    SARAH A WILLIAMS-BLANGERO; Fiscal Year: 2012
    ..of lymphocytes from 1,000 Mexican Americans who are members of large extended kindreds;(2) localize quantitative trait loci influencing function/pathway-specific biological ages in order to detect genetic regulators of ..
  54. Cloning QTL Genes for Plasma HDL Cholesterol
    RONNY KORSTANJE; Fiscal Year: 2013
    ..The mouse is an excellent model for finding HDL genes and the proteins they encode. Not only are quantitative trait loci (QTLs) for HDL in mouse and human found in concordant locations, but the mouse model can be used to ..
  55. Genetics of gene expression in human left ventricular myocardium
    Jochen Daniel Muehlschlegel; Fiscal Year: 2013
    ..genetic variation has been shown to contribute to gene expression level variation, also called expression quantitative trait loci (eQTL), which may contribute to complex phenotypes...
  56. Molecular and Genetic Analysis of Murine Steatohepatitis
    Richard M Green; Fiscal Year: 2010
    ..NASH is a polygenic disease, and Quantitative Trait Loci (QTL) analysis is a widely utilized genetic technique that can be applied to murine models in order to ..
  57. The Genetics and Evolution of Extreme Body Size in Mice from Gough Island
    Bret A Payseur; Fiscal Year: 2013
    ..Specifically, we will (1) identify quantitative trait loci (QTL) responsible for the evolution of extreme body size and shape in Gough Island mice, and (2) find ..
  58. Use of Closely Related Inbred Strains to Identify Modifier Loci of Tumorigenesis
    Linda D Siracusa; Fiscal Year: 2013
    ..Unlike traditional quantitative trait loci (QTL) studies that exploit the diversity among mouse strains, we will take advantage of genetic ..
  59. Insecticide Resistance in Culex pipiens pallens Mosquitoes
    Changliang Zhu; Fiscal Year: 2013
    ..pipiens, developed PCR-based knockdown resistance (kdr) mutation detection methods and conducted quantitative trait loci mapping for pyrethroid resistance...
  60. Congenic Mouse Strains Harboring Bone Strength Quantitative Trait Loci
    Robert D Blank; Fiscal Year: 2013
    ..We have mapped biomechanical performance quantitative trait loci (QTLs) in intercrosses of HcB- 13 x HcB-14 and HcB-8 x HcB 23 recombinant congenic mice, with QTLs ..
  61. Genetic Studies of Alcohol Tolerance
    Richard A Radcliffe; Fiscal Year: 2013
    ..between initial sensitivity, AFT, and rapid tolerance for the LORR response in the LXS RIs;2) map quantitative trait loci (QTL) for the responses determined in Aim 1;3) conduct expression profiling in the cerebellum and ..
  62. Genetics of Juvenile Idiopathic Arthritis and Subtypes
    Susan D Thompson; Fiscal Year: 2010
    ..and copy number variation predictive of JIA and its subtypes;and 4) computing GWA for expression quantitative trait loci (eQTL) in individuals with both Affymetrix 6.0 and existing global gene expression data...
  63. PHARMACOGENOMIC STUDY OF ANTICONVULSANT THERAPY
    THOMAS FERRARO; Fiscal Year: 2003
    ..Strains will be selected for quantitative trait loci (QTL) analyses based on their strain-specific response such that pairs of strains exhibiting the largest ..
  64. Phenotypic Determinants of Murine Cholelithiasis
    Martin Carey; Fiscal Year: 2004
    ..critical pathophysiological changes that are induced by genetic susceptibility within newly-identified quantitative trait loci (QTL) in genetically-diverse inbred mouse strains...
  65. BLOOD PRESSURE CANDIDATE GENE SCREENING--A NEW PARADIGM
    GEORGE CICILA; Fiscal Year: 2001
    ..The applicants have linked loci on rat chromosomes 3 and 7 to blood pressure quantitative trait loci (BP QTL) in a segregating population bred from inbred Dahl salt-sensitive (S) and salt-resistant (R) rats ..
  66. Genetic Variation in Factor IX and Thrombosis Risk
    TOM HOWARD; Fiscal Year: 2006
    ..f-IX levels are strongly correlated genetically (rho[sub g] about 60%), indicating a number of the f-IX quantitative trait loci (QTLs) also influence thrombosis risk...
  67. GENETIC ANALYSIS OF HIP FRAGILITY
    Tatiana M Foroud; Fiscal Year: 2010
    ..We have successfully mapped quantitative trait loci (QTLs) for femoral neck and femoral midshaft phenotypes, the primary and secondary goals of the project...
  68. Joint Determinants of Bone Density and CVD Calcification
    Braxton Mitchell; Fiscal Year: 2004
    ..repeat (STR) markers spaced at approximately 10 cM intervals and perform a genome-wide scan to detect quantitative trait loci (QTLs) associated with variation in BMD and related traits...
  69. Genetic Basis of Lung Tumor Progression in Mice
    Ming You; Fiscal Year: 2006
    ..A quantitative trait loci (QTL) responsible for lung tumor progression has been mapped to chromosome 4...
  70. Identifying Chromosome 3 Blood Pressure QTL Candidates
    GEORGE CICILA; Fiscal Year: 2006
    ..One of these blood pressure (BP) quantitative trait loci (QTL), located near the q-terminus of RNO3, was confirmed by developing a congenic strain, S.R-Edn3...
  71. Transposon mutagenesis for modeling complex human disease in rats
    Howard Jacob; Fiscal Year: 2009
    ..More than 1300 disease-related quantitative trait loci (QTL) have been mapped in genetic studies in the rat...