Published in Science on March 28, 2002
Statistical significance for genomewide studies. Proc Natl Acad Sci U S A (2003) 88.64
Genetic analysis of genome-wide variation in human gene expression. Nature (2004) 27.28
Genome-wide associations of gene expression variation in humans. PLoS Genet (2005) 17.27
Mapping determinants of human gene expression by regional and genome-wide association. Nature (2005) 17.24
Capturing heterogeneity in gene expression studies by surrogate variable analysis. PLoS Genet (2007) 12.08
Variations in DNA elucidate molecular networks that cause disease. Nature (2008) 12.04
An integrative genomics approach to infer causal associations between gene expression and disease. Nat Genet (2005) 11.40
High-resolution mapping of expression-QTLs yields insight into human gene regulation. PLoS Genet (2008) 9.68
The landscape of genetic complexity across 5,700 gene expression traits in yeast. Proc Natl Acad Sci U S A (2005) 9.66
Genetic inheritance of gene expression in human cell lines. Am J Hum Genet (2004) 8.97
Mapping complex disease traits with global gene expression. Nat Rev Genet (2009) 7.44
Cis-acting expression quantitative trait loci in mice. Genome Res (2005) 6.66
Genetic interactions between polymorphisms that affect gene expression in yeast. Nature (2005) 6.42
Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays. BMC Genomics (2009) 6.41
DNase I sensitivity QTLs are a major determinant of human expression variation. Nature (2012) 6.17
Large-scale identification of single-feature polymorphisms in complex genomes. Genome Res (2003) 6.04
The genetics of quantitative traits: challenges and prospects. Nat Rev Genet (2009) 5.99
Integrating genetic and network analysis to characterize genes related to mouse weight. PLoS Genet (2006) 5.82
Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nat Genet (2008) 5.80
Revealing the architecture of gene regulation: the promise of eQTL studies. Trends Genet (2008) 5.78
Multiple locus linkage analysis of genomewide expression in yeast. PLoS Biol (2005) 5.61
The sva package for removing batch effects and other unwanted variation in high-throughput experiments. Bioinformatics (2012) 4.48
Gene-environment interaction in yeast gene expression. PLoS Biol (2008) 4.48
Dissection of genetically complex traits with extremely large pools of yeast segregants. Nature (2010) 4.32
Homozygosity mapping with SNP arrays identifies TRIM32, an E3 ubiquitin ligase, as a Bardet-Biedl syndrome gene (BBS11). Proc Natl Acad Sci U S A (2006) 4.16
Genetics of human gene expression: mapping DNA variants that influence gene expression. Nat Rev Genet (2009) 4.05
Differential allelic expression in the human genome: a robust approach to identify genetic and epigenetic cis-acting mechanisms regulating gene expression. PLoS Genet (2008) 3.92
Identifying regulatory mechanisms using individual variation reveals key role for chromatin modification. Proc Natl Acad Sci U S A (2006) 3.68
Comprehensive polymorphism survey elucidates population structure of Saccharomyces cerevisiae. Nature (2009) 3.67
Accurate discovery of expression quantitative trait loci under confounding from spurious and genuine regulatory hotspots. Genetics (2008) 3.66
Abundant pleiotropy in human complex diseases and traits. Am J Hum Genet (2011) 3.60
The repertoire and dynamics of evolutionary adaptations to controlled nutrient-limited environments in yeast. PLoS Genet (2008) 3.58
Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789. Proc Natl Acad Sci U S A (2007) 3.52
Genetic and genomic analysis of a fat mass trait with complex inheritance reveals marked sex specificity. PLoS Genet (2006) 3.51
Rapid evolution of male-biased gene expression in Drosophila. Proc Natl Acad Sci U S A (2003) 3.45
Mapping determinants of gene expression plasticity by genetical genomics in C. elegans. PLoS Genet (2006) 3.39
Increasing the power to detect causal associations by combining genotypic and expression data in segregating populations. PLoS Comput Biol (2007) 3.37
Genetic architecture of transcript-level variation in humans. Am J Hum Genet (2008) 3.36
Learning a prior on regulatory potential from eQTL data. PLoS Genet (2009) 3.31
Gene expression in skin and lymphoblastoid cells: Refined statistical method reveals extensive overlap in cis-eQTL signals. Am J Hum Genet (2010) 3.28
A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies. PLoS Comput Biol (2010) 3.23
Comparative analysis of proteome and transcriptome variation in mouse. PLoS Genet (2011) 3.23
Local regulatory variation in Saccharomyces cerevisiae. PLoS Genet (2005) 3.23
Regulatory polymorphisms underlying complex disease traits. J Mol Med (Berl) (2004) 3.22
Microarrays, deep sequencing and the true measure of the transcriptome. BMC Biol (2011) 3.12
Global eQTL mapping reveals the complex genetic architecture of transcript-level variation in Arabidopsis. Genetics (2006) 3.10
Analysis of allelic differential expression in human white blood cells. Genome Res (2006) 3.07
Regulatory network construction in Arabidopsis by using genome-wide gene expression quantitative trait loci. Proc Natl Acad Sci U S A (2007) 2.94
Regulation of gene expression in the mammalian eye and its relevance to eye disease. Proc Natl Acad Sci U S A (2006) 2.91
Scanning the genome for gene single nucleotide polymorphisms involved in adaptive population differentiation in white spruce. Mol Ecol (2008) 2.91
A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk. Nature (2010) 2.88
Heritability and tissue specificity of expression quantitative trait loci. PLoS Genet (2006) 2.80
Comparative whole genome transcriptome analysis of three Plasmodium falciparum strains. Nucleic Acids Res (2006) 2.78
Natural variation in cardiac metabolism and gene expression in Fundulus heteroclitus. Nat Genet (2004) 2.75
Genetic analysis of variation in transcription factor binding in yeast. Nature (2010) 2.69
Identification, replication, and functional fine-mapping of expression quantitative trait loci in primary human liver tissue. PLoS Genet (2011) 2.68
Hsp90 and environmental stress transform the adaptive value of natural genetic variation. Science (2010) 2.68
Nucleosome positioning: how is it established, and why does it matter? Dev Biol (2009) 2.68
Simultaneous genotyping, gene-expression measurement, and detection of allele-specific expression with oligonucleotide arrays. Genome Res (2005) 2.66
Genetical genomics: spotlight on QTL hotspots. PLoS Genet (2008) 2.63
Transcriptional regulatory circuits: predicting numbers from alphabets. Science (2009) 2.61
A complete mass-spectrometric map of the yeast proteome applied to quantitative trait analysis. Nature (2013) 2.61
The role of nucleosome positioning in the evolution of gene regulation. PLoS Biol (2010) 2.53
Dissecting the regulatory architecture of gene expression QTLs. Genome Biol (2012) 2.51
The many faces of pleiotropy. Trends Genet (2012) 2.48
New insights into the genetic control of gene expression using a Bayesian multi-tissue approach. PLoS Comput Biol (2010) 2.43
Polymorphic cis- and trans-regulation of human gene expression. PLoS Biol (2010) 2.42
Revealing the genetic structure of a trait by sequencing a population under selection. Genome Res (2011) 2.42
Moving toward a system genetics view of disease. Mamm Genome (2007) 2.38
Neutral and adaptive variation in gene expression. Proc Natl Acad Sci U S A (2006) 2.37
Telomere length as a quantitative trait: genome-wide survey and genetic mapping of telomere length-control genes in yeast. PLoS Genet (2006) 2.36
Gene set enrichment in eQTL data identifies novel annotations and pathway regulators. PLoS Genet (2008) 2.32
Genetic analysis of radiation-induced changes in human gene expression. Nature (2009) 2.30
Inferring causal phenotype networks from segregating populations. Genetics (2008) 2.23
Optimization and validation of multilocus sequence typing for Candida albicans. J Clin Microbiol (2003) 2.18
Single-feature polymorphism discovery in the barley transcriptome. Genome Biol (2005) 2.15
Linking metabolic QTLs with network and cis-eQTLs controlling biosynthetic pathways. PLoS Genet (2007) 2.15
Systems biology in immunology: a computational modeling perspective. Annu Rev Immunol (2011) 2.15
Using probabilistic estimation of expression residuals (PEER) to obtain increased power and interpretability of gene expression analyses. Nat Protoc (2012) 2.14
Variations in stress sensitivity and genomic expression in diverse S. cerevisiae isolates. PLoS Genet (2008) 2.08
Genetic variation shapes protein networks mainly through non-transcriptional mechanisms. PLoS Biol (2011) 2.08
The genetics of regulatory variation in the human genome. Hum Genomics (2005) 2.05
Frequent gain and loss of functional transcription factor binding sites. PLoS Comput Biol (2007) 2.04
A powerful and flexible statistical framework for testing hypotheses of allele-specific gene expression from RNA-seq data. Genome Res (2011) 2.00
Systems genetics approaches to understand complex traits. Nat Rev Genet (2013) 1.97
Causal inference of regulator-target pairs by gene mapping of expression phenotypes. BMC Genomics (2006) 1.97
The new mutation theory of phenotypic evolution. Proc Natl Acad Sci U S A (2007) 1.97
Population genetic variation in gene expression is associated with phenotypic variation in Saccharomyces cerevisiae. Genome Biol (2004) 1.96
Harnessing naturally randomized transcription to infer regulatory relationships among genes. Genome Biol (2007) 1.94
Combined expression trait correlations and expression quantitative trait locus mapping. PLoS Genet (2006) 1.93
Compensatory cis-trans evolution and the dysregulation of gene expression in interspecific hybrids of Drosophila. Genetics (2005) 1.93
Mapping of numerous disease-associated expression polymorphisms in primary peripheral blood CD4+ lymphocytes. Hum Mol Genet (2010) 1.89
A systems biology approach identifies a R2R3 MYB gene subfamily with distinct and overlapping functions in regulation of aliphatic glucosinolates. PLoS One (2007) 1.89
Genetic variation in human gene expression. Mamm Genome (2006) 1.88
Yeast: an experimental organism for 21st Century biology. Genetics (2011) 1.88
Circadian control of global gene expression patterns. Annu Rev Genet (2010) 1.85
DNA variation and brain region-specific expression profiles exhibit different relationships between inbred mouse strains: implications for eQTL mapping studies. Genome Biol (2007) 1.84
Biochemical networks and epistasis shape the Arabidopsis thaliana metabolome. Plant Cell (2008) 1.84
Stitching together multiple data dimensions reveals interacting metabolomic and transcriptomic networks that modulate cell regulation. PLoS Biol (2012) 1.82
Mapping novel traits by array-assisted bulk segregant analysis in Saccharomyces cerevisiae. Genetics (2006) 1.81
Finding the missing heritability of complex diseases. Nature (2009) 67.95
Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium. Am J Hum Genet (2003) 21.52
Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors. Nat Genet (2003) 11.84
The landscape of genetic complexity across 5,700 gene expression traits in yeast. Proc Natl Acad Sci U S A (2005) 9.66
Mapping complex disease loci in whole-genome association studies. Nature (2004) 7.31
Population history and natural selection shape patterns of genetic variation in 132 genes. PLoS Biol (2004) 7.11
Patterns of linkage disequilibrium in the human genome. Nat Rev Genet (2002) 7.09
Genetics of global gene expression. Nat Rev Genet (2006) 6.80
Genetic interactions between polymorphisms that affect gene expression in yeast. Nature (2005) 6.42
Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays. BMC Genomics (2009) 6.41
Genetic structure of the purebred domestic dog. Science (2004) 6.39
Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nat Genet (2008) 5.80
Multiple locus linkage analysis of genomewide expression in yeast. PLoS Biol (2005) 5.61
A 3.9-centimorgan-resolution human single-nucleotide polymorphism linkage map and screening set. Am J Hum Genet (2003) 5.34
Additional SNPs and linkage-disequilibrium analyses are necessary for whole-genome association studies in humans. Nat Genet (2003) 5.30
Gene-environment interaction in yeast gene expression. PLoS Biol (2008) 4.48
Natural malaria infection in Anopheles gambiae is regulated by a single genomic control region. Science (2006) 4.38
Dissection of genetically complex traits with extremely large pools of yeast segregants. Nature (2010) 4.32
Haplotype diversity across 100 candidate genes for inflammation, lipid metabolism, and blood pressure regulation in two populations. Am J Hum Genet (2004) 3.91
Comprehensive polymorphism survey elucidates population structure of Saccharomyces cerevisiae. Nature (2009) 3.67
Finding the sources of missing heritability in a yeast cross. Nature (2013) 3.43
Genome-wide detection of polymorphisms at nucleotide resolution with a single DNA microarray. Science (2006) 3.32
Local regulatory variation in Saccharomyces cerevisiae. PLoS Genet (2005) 3.23
Recombinational landscape and population genomics of Caenorhabditis elegans. PLoS Genet (2009) 3.14
Genetic basis of proteome variation in yeast. Nat Genet (2007) 3.04
Extensive and breed-specific linkage disequilibrium in Canis familiaris. Genome Res (2004) 2.85
Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity. Nat Genet (2012) 2.85
Widespread genetic incompatibility in C. elegans maintained by balancing selection. Science (2008) 2.84
Selection at linked sites shapes heritable phenotypic variation in C. elegans. Science (2010) 2.84
Simultaneous genotyping, gene-expression measurement, and detection of allele-specific expression with oligonucleotide arrays. Genome Res (2005) 2.66
Population genomic analysis of outcrossing and recombination in yeast. Nat Genet (2006) 2.50
Quantitative mapping of a digenic behavioral trait implicates globin variation in C. elegans sensory behaviors. Neuron (2009) 2.44
Telomere length as a quantitative trait: genome-wide survey and genetic mapping of telomere length-control genes in yeast. PLoS Genet (2006) 2.36
Catecholamine receptor polymorphisms affect decision-making in C. elegans. Nature (2011) 2.32
Genetic basis of individual differences in the response to small-molecule drugs in yeast. Nat Genet (2007) 2.18
Genetic loci affecting resistance to human malaria parasites in a West African mosquito vector population. Science (2002) 2.11
Genetic variation shapes protein networks mainly through non-transcriptional mechanisms. PLoS Biol (2011) 2.08
Absence of detectable arsenate in DNA from arsenate-grown GFAJ-1 cells. Science (2012) 2.03
A polymorphism in npr-1 is a behavioral determinant of pathogen susceptibility in C. elegans. Science (2009) 1.98
Revealing complex traits with small molecules and naturally recombinant yeast strains. Chem Biol (2006) 1.87
A novel sperm-delivered toxin causes late-stage embryo lethality and transmission ratio distortion in C. elegans. PLoS Biol (2011) 1.84
Genome-wide analysis of nucleotide-level variation in commonly used Saccharomyces cerevisiae strains. PLoS One (2007) 1.80
Cell-to-cell stochastic variation in gene expression is a complex genetic trait. PLoS Genet (2008) 1.79
Natural variation in a chloride channel subunit confers avermectin resistance in C. elegans. Science (2012) 1.77
Molecular basis of the copulatory plug polymorphism in Caenorhabditis elegans. Nature (2008) 1.61
Genetic complexity and quantitative trait loci mapping of yeast morphological traits. PLoS Genet (2007) 1.61
Identification and dissection of a complex DNA repair sensitivity phenotype in Baker's yeast. PLoS Genet (2008) 1.45
Breeding designs for recombinant inbred advanced intercross lines. Genetics (2008) 1.40
Polymorphisms in multiple genes contribute to the spontaneous mitochondrial genome instability of Saccharomyces cerevisiae S288C strains. Genetics (2009) 1.38
Single QTL mapping and nucleotide-level resolution of a physiologic trait in wine Saccharomyces cerevisiae strains. FEMS Yeast Res (2007) 1.37
Allele frequency matching between SNPs reveals an excess of linkage disequilibrium in genic regions of the human genome. PLoS Genet (2006) 1.27
A new susceptibility locus for autosomal dominant pancreatic cancer maps to chromosome 4q32-34. Am J Hum Genet (2002) 1.21
A practical algorithm for finding maximal exact matches in large sequence datasets using sparse suffix arrays. Bioinformatics (2009) 1.16
More than the sum of its parts: a complex epistatic network underlies natural variation in thermal preference behavior in Caenorhabditis elegans. Genetics (2012) 1.14
Genetic architecture of highly complex chemical resistance traits across four yeast strains. PLoS Genet (2012) 1.13
Power tools for human genetics. Nat Genet (2005) 1.12
Protein quantification across hundreds of experimental conditions. Proc Natl Acad Sci U S A (2009) 1.10
Multiparameter behavioral profiling reveals distinct thermal response regimes in Caenorhabditis elegans. BMC Biol (2012) 1.09
Optimized detection of sequence variation in heterozygous genomes using DNA microarrays with isothermal-melting probes. Proc Natl Acad Sci U S A (2010) 1.08
Comparative developmental expression profiling of two C. elegans isolates. PLoS One (2008) 1.08
Rise of the machines. PLoS Genet (2008) 1.04
A natural polymorphism in rDNA replication origins links origin activation with calorie restriction and lifespan. PLoS Genet (2013) 1.02
Using expression and genotype to predict drug response in yeast. PLoS One (2009) 0.95
Disease progression despite early loss of polyglutamine protein expression in SCA7 mouse model. J Neurosci (2004) 0.93
Quantitative measurement of allele-specific protein expression in a diploid yeast hybrid by LC-MS. Mol Syst Biol (2012) 0.93
Molecular genetics: DNA analysis of a putative dog clone. Nature (2006) 0.93
Natural single-nucleosome epi-polymorphisms in yeast. PLoS Genet (2010) 0.91
Long-range regulatory polymorphisms affecting a GABA receptor constitute a quantitative trait locus (QTL) for social behavior in Caenorhabditis elegans. PLoS Genet (2012) 0.90
Two populations of neuronal intranuclear inclusions in SCA7 differ in size and promyelocytic leukaemia protein content. Brain (2002) 0.89
Accurate proteome-wide protein quantification from high-resolution 15N mass spectra. Genome Biol (2011) 0.87
Natural polymorphism in BUL2 links cellular amino acid availability with chronological aging and telomere maintenance in yeast. PLoS Genet (2011) 0.86
Progressive retinal degeneration and dysfunction in R6 Huntington's disease mice. Hum Mol Genet (2002) 0.86
Variants in SUP45 and TRM10 underlie natural variation in translation termination efficiency in Saccharomyces cerevisiae. PLoS Genet (2011) 0.84
Natural sequence variants of yeast environmental sensors confer cell-to-cell expression variability. Mol Syst Biol (2013) 0.83
Genetic basis of hidden phenotypic variation revealed by increased translational readthrough in yeast. PLoS Genet (2012) 0.83
Genetic modifiers of chromatin acetylation antagonize the reprogramming of epi-polymorphisms. PLoS Genet (2012) 0.83
Genetics. It's the sequence, stupid! Science (2008) 0.81
Comment on 'Discrepancies in dbSNP confirmations rates and allele frequency distributions from varying genotyping error rates and patterns'. Bioinformatics (2004) 0.79
Sequence-based linkage analysis. Am J Hum Genet (2004) 0.78
No bias in linkage analysis. Am J Hum Genet (2004) 0.77
MyLabStocks: a web-application to manage molecular biology materials. Yeast (2014) 0.75
Cause and express. Nat Biotechnol (2009) 0.75
Finding modulators of stochasticity levels by quantitative genetics. Methods Mol Biol (2011) 0.75
Meeting Report on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems. G3 (Bethesda) (2015) 0.75