A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase (scientific article)

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Q37577194	Evidence of positive selection for a glycogen synthase (GYS1) mutation in domestic horse populations.
Q28314914	Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex
Q33353444	Evolution of outcrossing in experimental populations of Caenorhabditis elegans
Q35651792	Evolutionary analysis of the female-specific avian W chromosome
Q39648123	Evolutionary and functional analyses of cytochrome P4501A promoter polymorphisms in natural populations
Q37310341	Evolutionary history of GS3, a gene conferring grain length in rice
Q57197799	Evolutionary history of the thicket rats (genus Grammomys ) mirrors the evolution of African forests since late Miocene
Q38631102	Evolutionary significance of selected EDAR variants in Tibetan high-altitude adaptations
Q44997051	Exome resequencing reveals signatures of demographic and adaptive processes across the genome and range of black cottonwood (Populus trichocarpa).
Q28732047	Exon-specific QTLs skew the inferred distribution of expression QTLs detected using gene expression array data
Q35157950	Exonic single nucleotide polymorphisms within TLR3 associated with infant responses to serogroup C meningococcal conjugate vaccine
Q52695892	Experimental evolution reveals natural selection on standing genetic variation.
Q37736456	Exploiting Wild Relatives for Genomics-assisted Breeding of Perennial Crops.
Q57197967	Exploration of relationships between production and fertility traits in dairy cattle via association studies of SNPs within candidate genes derived by expression profiling
Q36365680	Exploring population admixture dynamics via empirical and simulated genome-wide distribution of ancestral chromosomal segments
Q61811014	Exploring the Structure of Haplotype Blocks and Genetic Diversity in Chinese Indigenous Pig Populations for Conservation Purpose
Q38788504	Exploring the genetics of feed efficiency and feeding behaviour traits in a pig line highly selected for performance characteristics.
Q97526182	Extending long-range phasing and haplotype library imputation algorithms to large and heterogeneous datasets
Q28390067	Extensive Hidden Genomic Mosaicism Revealed in Normal Tissue
Q35601084	Extensive linkage disequilibrium and parallel adaptive divergence across threespine stickleback genomes
Q33807685	FISH: fast and accurate diploid genotype imputation via segmental hidden Markov model
Q36882132	Familial aggregation of common sequence variants on 15q24-25.1 in lung cancer
Q36492206	Family-based association tests for genomewide association scans
Q34366227	Fast accurate missing SNP genotype local imputation
Q36320258	Fast admixture analysis and population tree estimation for SNP and NGS data
Q29614942	Fast and accurate genotype imputation in genome-wide association studies through pre-phasing
Q35947615	Fast and accurate inference of local ancestry in Latino populations
Q37048022	Fast and accurate long-range phasing in a UK Biobank cohort
Q33386692	Fast and flexible simulation of DNA sequence data
Q34271866	Fast computation for genome-wide association studies using boosted one-step statistics
Q51655067	FcRL3 gene promoter variant is associated with peripheral arthritis in Crohn's disease.
Q34007867	Fine mapping in 94 inbred mouse strains using a high-density haplotype resource
Q35040123	Fine-mapping additive and dominant SNP effects using group-LASSO and fractional resample model averaging
Q37072366	Fine-mapping the genetic basis of CRP regulation in African Americans: a Bayesian approach
Q34617139	Flexible and scalable genotyping-by-sequencing strategies for population studies
Q64890046	Fluctuating and Geographically Specific Selection Characterize Rapid Evolution of the Human KIR Region.
Q50703897	Footprints of recent selection and variability in breed composition in the Göttingen Minipig genome.
Q39019082	Footprints of selection in the ancestral admixture of a New World Creole cattle breed
Q35823638	Fosmid-based whole genome haplotyping of a HapMap trio child: evaluation of Single Individual Haplotyping techniques
Q36742599	GIGI: an approach to effective imputation of dense genotypes on large pedigrees
Q34945566	GUESS-ing polygenic associations with multiple phenotypes using a GPU-based evolutionary stochastic search algorithm
Q51698853	GWAS-identified schizophrenia risk SNPs at TSPAN18 are highly diverged between Europeans and East Asians.
Q21144898	Gene copy-number polymorphism caused by retrotransposition in humans
Q91871280	Gene hunting with hidden Markov model knockoffs
Q24657931	Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip
Q21560761	Gene-wide characterization of common quantitative trait loci for ABCB1 mRNA expression in normal liver tissues in the Chinese population
Q38738916	GeneImp: Fast Imputation to Large Reference Panels Using Genotype Likelihoods from Ultralow Coverage Sequencing.
Q31143778	Generating samples for association studies based on HapMap data
Q91745897	Genetic Affinities among Southern Africa Hunter-Gatherers and the Impact of Admixing Farmer and Herder Populations
Q91972002	Genetic Contribution to Variation in Blood Calcium, Phosphorus, and Alkaline Phosphatase Activity in Pigs
Q35690660	Genetic Contributions to the Development of Complications in Preterm Newborns.
Q48010501	Genetic Control of Plasticity in Root Morphology and Anatomy of Rice in Response to Water Deficit.
Q98735741	Genetic Diversity and Selection Signatures Within Diannan Small-Ear Pigs Revealed by Next-Generation Sequencing
Q41842884	Genetic adaptation of fatty-acid metabolism: a human-specific haplotype increasing the biosynthesis of long-chain omega-3 and omega-6 fatty acids
Q21184015	Genetic adaptation to high altitude in the Ethiopian highlands
Q30503638	Genetic and clinical features of progranulin-associated frontotemporal lobar degeneration
Q21563392	Genetic architecture of complex traits and accuracy of genomic prediction: coat colour, milk-fat percentage, and type in Holstein cattle as contrasting model traits
Q97531450	Genetic architecture of individual variation in recombination rate on the X chromosome in cattle
Q47619441	Genetic architectures of ADME genes in five Eurasian admixed populations and implications for drug safety and efficacy.
Q38103241	Genetic association studies: an information content perspective
Q46875876	Genetic association with rheumatoid arthritis-Genetic Analysis Workshop 15: summary of contributions from Group 2.
Q56372092	Genetic characterization of the Asian clam species complex (Corbicula) invasion in the Iberian Peninsula
Q92002225	Genetic control of male production in Daphnia pulex
Q34538235	Genetic determinants of glucose-6-phosphate dehydrogenase activity in Kenya
Q35029443	Genetic determinants of plasma von Willebrand factor antigen levels: a target gene SNP and haplotype analysis of ARIC cohort
Q64355649	Genetic diversity analysis of French goat populations reveals selective sweeps involved in their differentiation
Q28741369	Genetic diversity in India and the inference of Eurasian population expansion
Q37082639	Genetic diversity of canine olfactory receptors
Q47550373	Genetic diversity, breed composition and admixture of Kenyan domestic pigs.
Q36578441	Genetic effects and correlations between production and fertility traits and their dependency on the lactation-stage in Holstein Friesians
Q28752500	Genetic evidence supports linguistic affinity of Mlabri--a hunter-gatherer group in Thailand
Q36879265	Genetic mapping of recurrent exertional rhabdomyolysis in a population of North American Thoroughbreds
Q51601784	Genetic mapping of the major histocompatibility complex in the zebra finch (Taeniopygia guttata).
Q34358091	Genetic markers enhance coronary risk prediction in men: the MORGAM prospective cohorts
Q28235932	Genetic origins of lactase persistence and the spread of pastoralism in Africa
Q34483364	Genetic polymorphisms in vitamin D receptor VDR/RXRA influence the likelihood of colon adenoma recurrence
Q51272231	Genetic regulation of differentially methylated genes in visceral adipose tissue of severely obese men discordant for the metabolic syndrome.
Q34621232	Genetic structure and domestication history of the grape
Q34737114	Genetic structure and linkage disequilibrium in a diverse, representative collection of the C4 model plant, Sorghum bicolor
Q28266941	Genetic subdivision and candidate genes under selection in North American grey wolves
Q46970043	Genetic variants associated with Von Willebrand factor levels in healthy men and women identified using the HumanCVD BeadChip
Q46966781	Genetic variants in a lipid regulatory pathway as potential tools for improving the nutritional quality of grass-fed beef
Q37850339	Genetic variants in urinary bladder cancer: collective power of the "wimp SNPs".
Q30497894	Genetic variation in LPAL2, LPA, and PLG predicts plasma lipoprotein(a) level and carotid artery disease risk
Q38651847	Genetic variation of world soybean maturity date and geographic distribution of maturity groups
Q35172378	Genetic variation within IL18 is associated with insulin levels, insulin resistance and postprandial measures
Q34920257	Genetic variations in microRNA-related genes are novel susceptibility loci for esophageal cancer risk
Q41490210	Genetics of body fat mass and related traits in a pig population selected for leanness
Q36143232	Genetics of glucocorticoid-associated osteonecrosis in children with acute lymphoblastic leukemia
Q36446213	Genic and nongenic contributions to natural variation of quantitative traits in maize
Q28647375	Genome Scan for Selection in Structured Layer Chicken Populations Exploiting Linkage Disequilibrium Information
Q35711052	Genome partitioning of genetic variation for milk production and composition traits in holstein cattle
Q34407791	Genome patterns of selection and introgression of haplotypes in natural populations of the house mouse (Mus musculus).
Q39337083	Genome wide association study (GWAS) for grain yield in rice cultivated under water deficit
Q53789135	Genome- and exome-wide association study of serum lipoprotein (a) in the Jackson Heart Study.
Q35663964	Genome-Wide Association Mapping for Resistance to Leaf and Stripe Rust in Winter-Habit Hexaploid Wheat Landraces.
Q97420947	Genome-Wide Identification of a Regulatory Mutation in BMP15 Controlling Prolificacy in Sheep
Q64944835	Genome-Wide Signatures of Selection Detection in Three South China Indigenous Pigs.
Q36393254	Genome-enabled predictions for fruit weight and quality from repeated records in European peach progenies.
Q28602124	Genome-wide analysis reveals adaptation to high altitudes in Tibetan sheep
Q90049157	Genome-wide analysis reveals molecular convergence underlying domestication in 7 bird and mammals
Q35496013	Genome-wide analysis reveals population structure and selection in Chinese indigenous sheep breeds
Q34561907	Genome-wide analysis reveals selection for important traits in domestic horse breeds.
Q28596515	Genome-wide analysis reveals signatures of selection for important traits in domestic sheep from different ecoregions
Q24632119	Genome-wide and fine-resolution association analysis of malaria in West Africa
Q90505145	Genome-wide association analyses of quantitative disease resistance in diverse sets of soybean [Glycine max (L.) Merr.] plant introductions
Q35174375	Genome-wide association analyses reveal significant loci and strong candidate genes for growth and fatness traits in two pig populations
Q36220343	Genome-wide association analysis for feed efficiency in Angus cattle
Q43554352	Genome-wide association analysis for growth, muscularity and meat quality in Piétrain pigs
Q36424790	Genome-wide association analysis for quantitative trait loci influencing Warner-Bratzler shear force in five taurine cattle breeds
Q61804845	Genome-wide association analysis of stalk biomass and anatomical traits in maize
Q36332423	Genome-wide association mapping for phenotypic plasticity in rice.
Q36102076	Genome-wide association mapping of partial resistance to Phytophthora sojae in soybean plant introductions from the Republic of Korea
Q35771644	Genome-wide association mapping of quantitative traits in outbred mice
Q35460267	Genome-wide association mapping of salinity tolerance in rice (Oryza sativa).
Q37138548	Genome-wide association of multiple complex traits in outbred mice by ultra-low-coverage sequencing.
Q35150554	Genome-wide association scan for variants associated with early-onset prostate cancer
Q35254940	Genome-wide association studies identifies seven major regions responsible for iron deficiency chlorosis in soybean (Glycine max).
Q37295062	Genome-wide association studies of immune, disease and production traits in indigenous chicken ecotypes.
Q37422991	Genome-wide association studies--a summary for the clinical gastroenterologist
Q37292893	Genome-wide association studies: potential next steps on a genetic journey
Q30816996	Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle.
Q64078634	Genome-wide association study and scan for signatures of selection point to candidate genes for body temperature maintenance under the cold stress in Siberian cattle populations
Q34759421	Genome-wide association study for backfat thickness in Canchim beef cattle using Random Forest approach
Q34490287	Genome-wide association study identifies HLA 8.1 ancestral haplotype alleles as major genetic risk factors for myositis phenotypes.
Q34477629	Genome-wide association study identifies two major loci affecting calving ease and growth-related traits in cattle
Q30425447	Genome-wide association study implicates testis-sperm specific FKBP6 as a susceptibility locus for impaired acrosome reaction in stallions
Q28611113	Genome-wide association study of body weight in Australian Merino sheep reveals an orthologous region on OAR6 to human and bovine genomic regions affecting height and weight
Q57436998	Genome-wide association study of leaf architecture in the maize nested association mapping population
Q33519381	Genome-wide association study of rheumatoid arthritis by a score test based on wavelet transformation
Q34277240	Genome-wide association study reveals novel quantitative trait Loci associated with resistance to multiple leaf spot diseases of spring wheat
Q30827517	Genome-wide estimation of linkage disequilibrium from population-level high-throughput sequencing data
Q30976015	Genome-wide gene-based analysis of rheumatoid arthritis-associated interaction with PTPN22 and HLA-DRB1.
Q33617867	Genome-wide inference of ancestral recombination graphs
Q28943308	Genome-wide interrogation of germline genetic variation associated with treatment response in childhood acute lymphoblastic leukemia
Q36001590	Genome-wide meta-analyses of smoking behaviors in African Americans
Q30412686	Genome-wide meta-analysis of observational studies shows common genetic variants associated with macronutrient intake
Q36435865	Genome-wide meta-analysis points to CTC1 and ZNF676 as genes regulating telomere homeostasis in humans
Q34881018	Genome-wide nested association mapping of quantitative resistance to northern leaf blight in maize
Q64088810	Genome-wide nucleotide patterns and potential mechanisms of genome divergence following domestication in maize and soybean
Q101564288	Genome-wide scan for selection signatures reveals novel insights into the adaptive capacity in local North African cattle
Q35213699	Genome-wide scan of gastrointestinal nematode resistance in closed Angus population selected for minimized influence of MHC
Q44930365	Genome-wide scans to detect positive selection in Large White and Tongcheng pigs
Q28660671	Genome-wide signatures of population bottlenecks and diversifying selection in European wolves
Q42577360	Genome-wide view of genetic diversity reveals paths of selection and cultivar differentiation in peach domestication
Q55210189	Genomewide association analyses of fitness traits in captive-reared Chinook salmon: Applications in evaluating conservation strategies.
Q38751165	Genomewide patterns of variation in genetic diversity are shared among populations, species and higher-order taxa
Q91972031	Genomic Analysis Reveals Pleiotropic Alleles at EDN3 and BMP7 Involved in Chicken Comb Color and Egg Production
Q33667319	Genomic Comparison of Indigenous African and Northern European Chickens Reveals Putative Mechanisms of Stress Tolerance Related to Environmental Selection Pressure
Q30386173	Genomic Footprints in Selected and Unselected Beef Cattle Breeds in Korea.
Q33569956	Genomic Landscape Established by Allelic Imbalance in the Cancerization Field of a Normal Appearing Airway
Q49644807	Genomic Prediction and Association Mapping of Curd-Related Traits in Gene Bank Accessions of Cauliflower.
Q31096966	Genomic Profiles of Diversification and Genotype-Phenotype Association in Island Nematode Lineages.
Q55216472	Genomic analyses identify multiple Asian origins and deeply diverged mitochondrial clades in inbred brown rats (Rattus norvegicus).
Q92535289	Genomic analyses reveal three independent introductions of the invasive brown rat (Rattus norvegicus) to the Faroe Islands
Q36031774	Genomic analysis of Ugandan and Rwandan chicken ecotypes using a 600 k genotyping array.
Q58761912	Genomic analysis reveals genes affecting distinct phenotypes among different Chinese and western pig breeds
Q35908662	Genomic and functional approaches reveal a case of adaptive introgression from Populus balsamifera (balsam poplar) in P. trichocarpa (black cottonwood).
Q34722384	Genomic architecture of adaptive color pattern divergence and convergence in Heliconius butterflies
Q47238914	Genomic association for sexual precocity in beef heifers using pre-selection of genes and haplotype reconstruction.
Q41957955	Genomic basis of the differences between cider and dessert apple varieties.
Q28082852	Genomic data as the "hitchhiker's guide" to cattle adaptation: tracking the milestones of past selection in the bovine genome
Q42121379	Genomic divergence during speciation driven by adaptation to altitude.
Q34820484	Genomic evaluations using similarity between haplotypes.
Q38378103	Genomic prediction contributing to a promising global strategy to turbocharge gene banks
Q35234865	Genomic prediction of biological shape: elliptic Fourier analysis and kernel partial least squares (PLS) regression applied to grain shape prediction in rice (Oryza sativa L.).
Q34985951	Genomic prediction of trait segregation in a progeny population: a case study of Japanese pear (Pyrus pyrifolia).
Q34171881	Genomic scan of selective sweeps in thin and fat tail sheep breeds for identifying of candidate regions associated with fat deposition.
Q30276661	Genomic selection for wheat traits and trait stability
Q37113636	Genomic selection using low density marker panels with application to a sire line in pigs
Q37696352	Genomic signature of adaptation to climate in Medicago truncatula.
Q37412270	Genomic signatures among Oncorhynchus nerka ecotypes to inform conservation and management of endangered Sockeye Salmon
Q58774980	Genomic signatures of adaptive introgression and environmental adaptation in the Sheko cattle of southwest Ethiopia
Q38633222	Genomic signatures of adaptive introgression from European mouflon into domestic sheep
Q34300968	Genomic variation in seven Khoe-San groups reveals adaptation and complex African history
Q35866476	Genomic variation. Impact of regulatory variation from RNA to protein
Q31155680	Genotype Calling from Population-Genomic Sequencing Data
Q39592661	Genotype Imputation for Latinos Using the HapMap and 1000 Genomes Project Reference Panels
Q92875638	Genotype Imputation in Genome-Wide Association Studies
Q33903792	Genotype and SNP calling from next-generation sequencing data
Q36489998	Genotype calling and haplotyping in parent-offspring trios
Q33410700	Genotype determination for polymorphisms in linkage disequilibrium
Q29614590	Genotype imputation
Q34285635	Genotype imputation for African Americans using data from HapMap phase II versus 1000 genomes projects.
Q29614880	Genotype imputation for genome-wide association studies
Q38121526	Genotype imputation in genome-wide association studies
Q41554420	Genotype imputation via matrix completion
Q24633967	Genotype imputation with thousands of genomes
Q29615885	Genotype, haplotype and copy-number variation in worldwide human populations
Q34299704	Genotype-based test in mapping cis-regulatory variants from allele-specific expression data
Q44244217	Genotype-by-sequencing of the plant-pathogenic fungi Pyrenophora teres and Sphaerulina musiva utilizing Ion Torrent sequence technology.
Q37156125	Genotype-imputation accuracy across worldwide human populations
Q37435321	Genotyping error detection in samples of unrelated individuals without replicate genotyping
Q37176308	Geographical structure and differential natural selection among North European populations
Q37474395	Germline genetic variation in an organic anion transporter polypeptide associated with methotrexate pharmacokinetics and clinical effects
Q82474547	Global patterns of genetic diversity and signals of natural selection for human ADME genes
Q51154912	Global population divergence and admixture of the brown rat (Rattus norvegicus).
Q37434738	Global variation in CYP2C8-CYP2C9 functional haplotypes
Q36725251	Glycogen synthase (GYS1) mutation causes a novel skeletal muscle glycogenosis.
Q42073374	HI: haplotype improver using paired-end short reads
Q42614757	HIBAG--HLA genotype imputation with attribute bagging.
Q34182879	HTreeQA: Using Semi-Perfect Phylogeny Trees in Quantitative Trait Loci Study on Genotype Data
Q30686308	HapFABIA: identification of very short segments of identity by descent characterized by rare variants in large sequencing data
Q30787180	HapTree: a novel Bayesian framework for single individual polyplotyping using NGS data
Q35727785	HaploPOP: a software that improves population assignment by combining markers into haplotypes
Q33267538	HaploRec: efficient and accurate large-scale reconstruction of haplotypes
Q43070793	Haploscope: a tool for the graphical display of haplotype structure in populations.
Q21284340	Haplotype allelic classes for detecting ongoing positive selection
Q34233623	Haplotype analyses of haemoglobin C and haemoglobin S and the dynamics of the evolutionary response to malaria in Kassena-Nankana district of Ghana
Q30847521	Haplotype block partitioning as a tool for dimensionality reduction in SNP association studies
Q34415988	Haplotype diversity in the equine myostatin gene with focus on variants associated with race distance propensity and muscle fiber type proportions.
Q31106038	Haplotype estimation for biobank-scale data sets
Q33414409	Haplotype frequencies in a sub-region of chromosome 19q13.3, related to risk and prognosis of cancer, differ dramatically between ethnic groups
Q51859818	Haplotype inference and block partitioning in mixed population samples.
Q51626072	Haplotype inference using a Bayesian Hidden Markov model.
Q58883964	Haplotype inference with pseudo-Boolean optimization
Q42550828	Haplotype phasing after joint estimation of recombination and linkage disequilibrium in breeding populations
Q35554981	Haplotype phasing: existing methods and new developments
Q33324164	Haplotype reconstruction for scnp DNA: a consensus vote approach with extensive sequence data from populations of the migratory locust (Locusta migratoria).
Q34248220	Haplotype reconstruction using perfect phylogeny and sequence data
Q57216638	Haplotype uncertainty in association studies
Q36599387	Haplotype variation and genotype imputation in African populations.
Q37115923	Haplotype-association analysis
Q36490003	Haplotype-based profiling of subtle allelic imbalance with SNP arrays
Q42626184	Haplotype-sharing analysis showing Uyghurs are unlikely genetic donors
Q33644509	HaplotypeCN: copy number haplotype inference with Hidden Markov Model and localized haplotype clustering
Q91673577	Hepatocyte gene expression and DNA methylation as ancestry-dependent mechanisms in African Americans
Q89625567	High-density genotyping reveals signatures of selection related to acclimation and economically important traits in 15 local sheep breeds from Russia
Q37355626	High-density marker imputation accuracy in sixteen French cattle breeds
Q33773027	High-resolution detection of identity by descent in unrelated individuals
Q33434876	High-resolution haplotype block structure in the cattle genome
Q36140515	Historical genomics of North American maize.
Q55365579	Homo sapiens-Specific Binding Site Variants within Brain Exclusive Enhancers Are Subject to Accelerated Divergence across Human Population.
Q51124802	How to include chromosome X in your genome-wide association study.
Q28729964	Human-aided dispersal has altered but not erased the phylogeography of the tench
Q34470191	Human-induced evolution caught in action: SNP-array reveals rapid amphi-atlantic spread of pesticide resistance in the salmon ecotoparasite Lepeophtheirus salmonis
Q33912351	IGENT: efficient entropy based algorithm for genome-wide gene-gene interaction analysis
Q33287969	ISHAPE: new rapid and accurate software for haplotyping
Q57427044	Identification of QTL in Spring Wheat Associated with Resistance to a Novel Isolate of
Q37584550	Identification of a major locus interacting with MC1R and modifying black coat color in an F₂ Nellore-Angus population.
Q35233964	Identification of allelic imbalance with a statistical model for subtle genomic mosaicism
Q35920309	Identification of candidate genes involved in Witches' broom disease resistance in a segregating mapping population of Theobroma cacao L. in Brazil.
Q38815008	Identification of ethnically specific genetic variations in pan-asian ethnos
Q33412215	Identification of gene-gene interactions in the presence of missing data using the multifactor dimensionality reduction method
Q48712964	Identification of genome-wide selection signatures in the Limousin beef cattle breed
Q52563150	Identification of genomic regions and candidate genes for chicken meat ultimate pH by combined detection of selection signatures and QTL.
Q34055352	Identification of genomic regions associated with phenotypic variation between dog breeds using selection mapping
Q46355628	Identification of major loci and genomic regions controlling acid and volatile content in tomato fruit: implications for flavor improvement
Q84535117	Identification of novel genomic regions associated with resistance to Pyrenophora tritici-repentis races 1 and 5 in spring wheat landraces using association analysis
Q34155398	Identification of polymorphic inversions from genotypes
Q55080688	Identification of recombination events in outbred species with next-generation sequencing data.
Q45830608	Identification of single nucleotide polymorphisms in genes involved in digestive and metabolic processes associated with feed efficiency and performance traits in beef cattle
Q28478309	Identification, replication, and functional fine-mapping of expression quantitative trait loci in primary human liver tissue
Q37010357	Identifying Darwinian selection acting on different human APOL1 variants among diverse African populations.
Q47395472	Identifying Genetic Differences Between Dongxiang Blue-Shelled and White Leghorn Chickens Using Sequencing Data
Q44406151	Identifying a predictive model for response to atypical antipsychotic monotherapy treatment in south Indian schizophrenia patients
Q38664301	Identifying and mitigating batch effects in whole genome sequencing data.
Q34316627	Identifying mutation regions for closely related individuals without a known pedigree
Q33801169	Identifying positive selection candidate loci for high-altitude adaptation in Andean populations.
Q36878562	Identity by descent: variation in meiosis, across genomes, and in populations
Q42146819	Identity-by-descent matrix decomposition using latent ancestral allele models
Q36011064	Identity-by-descent-based phasing and imputation in founder populations using graphical models
Q35910259	Impact of imputation methods on the amount of genetic variation captured by a single-nucleotide polymorphism panel in soybeans
Q34537985	Impact of pre-imputation SNP-filtering on genotype imputation results.
Q33559147	Impact of reduced marker set estimation of genomic relationship matrices on genomic selection for feed efficiency in Angus cattle
Q36847469	Impact of variation at the FTO locus on milk fat yield in Holstein dairy cattle.
Q44584387	Improved whole-chromosome phasing for disease and population genetic studies
Q30608038	Improving the accuracy and efficiency of identity-by-descent detection in population data
Q60920005	Imputation accuracy of wheat genotyping-by-sequencing (GBS) data using barley and wheat genome references
Q37180287	Imputation of microsatellite alleles from dense SNP genotypes for parentage verification across multiple Bos taurus and Bos indicus breeds.
Q35221566	Imputation of missing genotypes from sparse to high density using long-range phasing.
Q30833155	Imputation-based analysis of association studies: candidate regions and quantitative traits
Q31034420	Imputing Genotypes in Biallelic Populations from Low-Coverage Sequence Data
Q31142818	Imputing missing genotypic data of single-nucleotide polymorphisms using neural networks
Q35137054	Inactive alleles of cytochrome P450 2C19 may be positively selected in human evolution
Q33807591	Inbred Strain Variant Database (ISVdb): A Repository for Probabilistically Informed Sequence Differences Among the Collaborative Cross Strains and Their Founders
Q41870735	Increasing the power of identifying gene x gene interactions in genome-wide association studies
Q36065311	Independent Molecular Basis of Convergent Highland Adaptation in Maize
Q44971105	Inference from genome-wide association studies using a novel Markov model
Q42034324	Inference from samples of DNA sequences using a two-locus model
Q30620384	Inference of gorilla demographic and selective history from whole-genome sequence data.
Q33388549	Inference of haplotypic phase and missing genotypes in polyploid organisms and variable copy number genomic regions
Q33992709	Inference of population mutation rate and detection of segregating sites from next-generation sequence data
Q30000939	Inference of population structure using dense haplotype data
Q33560630	Inferring combined CNV/SNP haplotypes from genotype data
Q21092484	Inferring human colonization history using a copying model
Q37079563	Inferring selection intensity and allele age from multilocus haplotype structure
Q35802242	Influence of single nucleotide polymorphisms in factor VIII and von Willebrand factor genes on plasma factor VIII activity: the ARIC Study
Q46937454	Insights into the maize pan-genome and pan-transcriptome
Q41890841	Integrated study of copy number states and genotype calls using high-density SNP arrays
Q35746734	Integrating Rare-Variant Testing, Function Prediction, and Gene Network in Composite Resequencing-Based Genome-Wide Association Studies (CR-GWAS).
Q35694419	Integrating genetic and gene expression evidence into genome-wide association analysis of gene sets
Q50284227	Integration of Random Forest with population-based outlier analyses provides insight on the genomic basis and evolution of run timing in Chinook salmon (Oncorhynchus tshawytscha).
Q34475588	Integrative analysis of gene-environment interactions under a multi-response partially linear varying coefficient model
Q34917186	Integrative modeling of eQTLs and cis-regulatory elements suggests mechanisms underlying cell type specificity of eQTLs
Q46964312	Integrative testing of how environments from the past to the present shape genetic structure across landscapes
Q36156014	Interleukin-10 (IL-10) polymorphisms are associated with IL-10 production and clinical malaria in young children
Q89431251	Intermediate degrees of synergistic pleiotropy drive adaptive evolution in ecological time
Q33847237	Interpretation of association signals and identification of causal variants from genome-wide association studies
Q42604580	Introgression and the fate of domesticated genes in a wild mammal population
Q46264207	Introgression from Populus balsamifera underlies adaptively significant variation and range boundaries in P. trichocarpa
Q33778843	Introgression from domestic goat generated variation at the major histocompatibility complex of Alpine ibex
Q44259625	Investigations on the pattern of linkage disequilibrium and selection signatures in the genomes of German Piétrain pigs
Q44286519	Is there still a need for candidate gene approaches in the era of genome-wide association studies?
Q35999546	Island-Model Genomic Selection for Long-Term Genetic Improvement of Autogamous Crops
Q33507127	Iterative two-pass algorithm for missing data imputation in SNP arrays
Q35695578	Jackknife-based gene-gene interactiontests for untyped SNPs
Q34072414	Joint identification of genetic variants for physical activity in Korean population
Q33332757	Joint study of genetic regulators for expression traits related to breast cancer
Q37397635	Kernel canonical correlation analysis for assessing gene-gene interactions and application to ovarian cancer
Q49906630	LPCAT1 controls phosphate homeostasis in a zinc-dependent manner.
Q33476560	Lack of association of TIM3 polymorphisms and allergic phenotypes.
Q57598281	Land subsidence susceptibility mapping at Kinta Valley (Malaysia) using the evidential belief function model in GIS
Q30419436	Large-scale gene-centric meta-analysis across 32 studies identifies multiple lipid loci
Q55044269	Large-scale genetic fine mapping and genotype-phenotype associations implicate polymorphism in the IL2RA region in type 1 diabetes.
Q34308519	Length distributions of identity by descent reveal fine-scale demographic history
Q35778035	LinkImpute: Fast and Accurate Genotype Imputation for Nonmodel Organisms
Q33892475	LinkImputeR: user-guided genotype calling and imputation for non-model organisms
Q52626885	Linkage Disequilibrium Estimation in Low Coverage High-Throughput Sequencing Data.
Q64092874	Linkage Mapping and Genome-Wide Association Studies of the Gene Cluster in Sunflower ( L.) and Their Distribution in World Sunflower Collections
Q33746950	Linkage disequilibrium reveals different demographic history in egg laying chickens
Q33356619	Linkage disequilibrium-based quality control for large-scale genetic studies
Q22065760	Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers
Q35119731	Local and global ancestry inference and applications to genetic association analysis for admixed populations
Q34071771	Local genealogies in a linear mixed model for genome-wide association mapping in complex pedigreed populations
Q49830332	Localization of adaptive variants in human genomes using averaged one-dependence estimation.
Q34054003	Localizing putative markers in genetic association studies by incorporating linkage disequilibrium into bayesian hierarchical models
Q38921722	Loci and candidate gene identification for resistance to Phytophthora sojae via association analysis in soybean [Glycine max (L.) Merr].
Q46784241	Long-Term Balancing Selection in LAD1 Maintains a Missense Trans-Species Polymorphism in Humans, Chimpanzees, and Bonobos
Q39735534	Long-term selection for litter size in swine results in shifts in allelic frequency in regions involved in reproductive processes.
Q64884063	Loter: A software package to infer local ancestry for a wide range of species.
Q28649422	Low levels of taurine introgression in the current Brazilian Nelore and Gir indicine cattle populations
Q31120472	MODEM: multi-omics data envelopment and mining in maize
Q24635938	MaCH: using sequence and genotype data to estimate haplotypes and unobserved genotypes
Q46633417	Malaria haplotype frequency estimation
Q50325671	Mapping of a Major QTL for Ceratocystis Wilt Disease in an F1 Population of Theobroma cacao.
Q34200862	Maternal PRKAA1 and EDNRA genotypes are associated with birth weight, and PRKAA1 with uterine artery diameter and metabolic homeostasis at high altitude
Q36076913	Megabase-scale inversion polymorphism in the wild ancestor of maize
Q35954287	Merino and Merino-derived sheep breeds: a genome-wide intercontinental study
Q33612013	Methods for detecting interactions between genetic polymorphisms and prenatal environment exposure with a mother-child design
Q34596720	Methods of tagSNP selection and other variables affecting imputation accuracy in swine.
Q58731114	Methods to evaluate rare variants gene-age interaction for triglycerides
Q33298732	Methods to impute missing genotypes for population data
Q46778038	Microsatellite variation in the equine MHC.
Q33375386	Missing data imputation and haplotype phase inference for genome-wide association studies
Q40976095	Mixed model association mapping for fusarium head blight resistance in tunisian-derived durum wheat populations
Q35025730	Mixed modeling and multiple imputation for unobservable genotype clusters
Q31030396	Modeling X Chromosome Data Using Random Forests: Conquering Sex Bias
Q42429947	Modeling associations between genetic markers using Bayesian networks
Q35065473	Modeling of identity-by-descent processes along a chromosome between haplotypes and their genotyped ancestors
Q24619105	Modeling recent human evolution in mice by expression of a selected EDAR variant
Q31061504	Modern computational approaches for analysing molecular genetic variation data
Q31007195	Molecular data from contemporary and historical collections reveal a complex story of cryptic diversification in the Varanus (Polydaedalus) niloticus Species Group
Q35948286	Molecular phylogenetics of Candida albicans.
Q33410770	Molecular population genetics of SLC4A1 and Southeast Asian ovalocytosis
Q34076338	More powerful haplotype sharing by accounting for the mode of inheritance
Q64111027	Morphology and genome of a snailfish from the Mariana Trench provide insights into deep-sea adaptation
Q46580487	Multi-SNP Haplotype Analysis Methods for Association Analysis
Q35871740	Multi-allelic haplotype model based on genetic partition for genomic prediction and variance component estimation using SNP markers
Q46563984	Multi-generational imputation of single nucleotide polymorphism marker genotypes and accuracy of genomic selection
Q89926494	Multi-resolution localization of causal variants across the genome
Q24646528	Multilocus analysis of GAW15 NARAC chromosome 18 case-control data
Q42418605	Multilocus association mapping using variable-length Markov chains
Q33984474	Multiple FLC haplotypes defined by independent cis-regulatory variation underpin life history diversity in Arabidopsis thaliana
Q34677821	Multiple haplotype-resolved genomes reveal population patterns of gene and protein diplotypes
Q36718971	Multipoint approximations of identity-by-descent probabilities for accurate linkage analysis of distantly related individuals
Q37340313	Multivariate association test using haplotype trend regression.
Q42223437	Natural allelic variation of FRO2 modulates Arabidopsis root growth under iron deficiency
Q34123495	Natural selection and the distribution of identity-by-descent in the human genome
Q90608497	Natural variation and selection in GmSWEET39 affect soybean seed oil content
Q35525307	Natural variation in teosinte at the domestication locus teosinte branched1 (tb1).
Q54560667	Navigating the mtDNA road map out of the morphological maze: interpreting morphological variation in the diverseMonomorium rothsteini(Forel) complex (Hymenoptera: Formicidae)
Q28287815	New World cattle show ancestry from multiple independent domestication events
Q47959079	New multilocus linkage disequilibrium measure for tag SNP selection
Q30832807	Next Generation Statistical Genetics: Modeling, Penalization, and Optimization in High-Dimensional Data
Q34506336	Nicotine reward and affective nicotine withdrawal signs are attenuated in calcium/calmodulin-dependent protein kinase IV knockout mice
Q57549294	No association between chromosome 12p13 single nucleotide polymorphisms and early-onset ischemic stroke
Q34016483	No evidence for strong recent positive selection favoring the 7 repeat allele of VNTR in the DRD4 gene
Q35154314	Novel genomic signals of recent selection in an Ethiopian population
Q37489569	OATP1B1-related drug-drug and drug-gene interactions as potential risk factors for cerivastatin-induced rhabdomyolysis
Q42727401	Occasional recombination of a selfish X-chromosome may permit its persistence at high frequencies in the wild
Q30587059	On combining reference data to improve imputation accuracy
Q21560852	On the origin of Tibetans and their genetic basis in adapting high-altitude environments
Q35400085	Optimal methods for meta-analysis of genome-wide association studies
Q28301163	Origin and differential selection of allelic variation at TAS2R16 associated with salicin bitter taste sensitivity in Africa
Q34031664	Origins and genetic legacy of Neolithic farmers and hunter-gatherers in Europe
Q37303784	PWHATSHAP: efficient haplotyping for future generation sequencing
Q28743276	PanSNPdb: the Pan-Asian SNP genotyping database
Q33942409	ParaHaplo 2.0: a program package for haplotype-estimation and haplotype-based whole-genome association study using parallel computing
Q47236586	Parent-progeny imputation from pooled samples for cost-efficient genotyping in plant breeding
Q36691786	Pattern-recognition techniques with haplotype analysis in pharmacogenomics
Q89847259	Patterns of African and Asian admixture in the Afrikaner population of South Africa
Q34263065	Patterns of ancestry, signatures of natural selection, and genetic association with stature in Western African pygmies
Q38633000	Patterns of genomic and phenomic diversity in wine and table grapes
Q56114280	Patterns of shared signatures of recent positive selection across human populations
Q34022023	PedBLIMP: extending linear predictors to impute genotypes in pedigrees
Q51539969	Pedigree- and marker-based methods in the estimation of genetic diversity in small groups of Holstein cattle.
Q33761204	Performance of single nucleotide polymorphisms versus haplotypes for genome-wide association analysis in barley
Q37608121	Pharmacogenetics in American Indian populations: analysis of CYP2D6, CYP3A4, CYP3A5, and CYP2C9 in the Confederated Salish and Kootenai Tribes
Q39788069	Phasing for medical sequencing using rare variants and large haplotype reference panels
Q34293327	Phasing of many thousands of genotyped samples
Q34529913	Phenotype prediction from genome-wide association studies: application to smoking behaviors
Q34587451	Phred-Phrap package to analyses tools: a pipeline to facilitate population genetics re-sequencing studies
Q40923249	Phylogeographic Analyses of American Black Bears (Ursus americanus) Suggest Four Glacial Refugia and Complex Patterns of Postglacial Admixture.
Q38809601	Plant adaptation or acclimation to rising CO2 ? Insight from first multigenerational RNA-Seq transcriptome
Q57177416	Polygenic Basis and Variable Genetic Architectures Contribute to the Complex Nature of Body Weight -A Genome-Wide Study in Four Chinese Indigenous Chicken Breeds
Q40826704	Polymorphisms in CAMKK2 may predict sensory neuropathy in African HIV patients
Q30490407	Polymorphisms of the IL1-receptor antagonist gene (IL1RN) are associated with multiple markers of systemic inflammation
Q92483450	Population Genomics Analysis Revealed Origin and High-altitude Adaptation of Tibetan Pigs
Q27301853	Population Variation Reveals Independent Selection toward Small Body Size in Chinese Debao Pony
Q39682956	Population differentiation as a test for selective sweeps
Q24647682	Population genetic analysis of the N-acylsphingosine amidohydrolase gene associated with mental activity in humans
Q33694358	Population genomics reveals a candidate gene involved in bumble bee pigmentation
Q39635800	Population structure and linkage disequilibrium in Lupinus albus L. germplasm and its implication for association mapping.
Q36974394	Population structure of eleven Spanish ovine breeds and detection of selective sweeps with BayeScan and hapFLK
Q34082226	Population structure with localized haplotype clusters
Q44112220	Population-based case-control association studies
Q36713175	Porcine colonization of the Americas: a 60k SNP story.
Q46034462	Positive natural selection of TRIB2, a novel gene that influences visceral fat accumulation, in East Asia.
Q34534993	Positive selection in the chromosome 16 VKORC1 genomic region has contributed to the variability of anticoagulant response in humans
Q33355142	Positive selection of protective variants for type 2 diabetes from the Neolithic onward: a case study in Central Asia
Q34384481	Positive selection on the osteoarthritis-risk and decreased-height associated variants at the GDF5 gene in East Asians
Q43683512	Postassociation cleaning using linkage disequilibrium information
Q41201653	Power consequences of linkage disequilibrium variation between populations
Q35720540	Practical Consideration of Genotype Imputation: Sample Size, Window Size, Reference Choice, and Untyped Rate
Q34030741	Practical considerations for imputation of untyped markers in admixed populations
Q33389849	Practical issues in imputation-based association mapping
Q35053557	Predicting haplotype carriers from SNP genotypes in Bos taurus through linear discriminant analysis
Q33816042	Prediction of haplotypes for ungenotyped animals and its effect on marker-assisted breeding value estimation
Q33318138	Prevalence of common disease-associated variants in Asian Indians.
Q33571786	Prioritizing GWAS results: A review of statistical methods and recommendations for their application
Q33760332	Privacy preserving protocol for detecting genetic relatives using rare variants
Q33692372	Private haplotypes can reveal local adaptation
Q41814480	Probabilistic inference of viral quasispecies subject to recombination
Q30355743	Protecting genomic data analytics in the cloud: state of the art and opportunities
Q34146104	Psychophysical dissection of genotype effects on human bitter perception.
Q35925249	R2d2 Drives Selfish Sweeps in the House Mouse
Q45362175	RNA sequencing reveals the complex regulatory network in the maize kernel
Q24655574	Rapid and accurate haplotype phasing and missing-data inference for whole-genome association studies by use of localized haplotype clustering
Q34538897	Rapid evolutionary response to a transmissible cancer in Tasmanian devils
Q37138536	Rapid genotype imputation from sequence without reference panels
Q39179022	Rapid haplotype inference for nuclear families
Q35634476	Rare versus common variants in pharmacogenetics: SLCO1B1 variation and methotrexate disposition
Q47652000	Reappraisal of the genetic diversity and pharmacogenetic assessment of CES1.
Q58758459	Recent Selection on a Class I ADH Locus Distinguishes Southwest Asian Populations Including Ashkenazi Jews
Q35607822	Recent artificial selection in U.S. Jersey cattle impacts autozygosity levels of specific genomic regions
Q37671972	Recent selection on the Y-to-dot translocation in Drosophila pseudoobscura
Q97073419	Recombination disequilibrium in ideal and natural populations
Q33809762	Recombination locations and rates in beef cattle assessed from parent-offspring pairs
Q46848051	Recombination networks as genetic markers in a human variation study of the Old World
Q37395043	Reference-based phasing using the Haplotype Reference Consortium panel
Q39160574	Regional selection of the brain size regulating gene CASC5 provides new insight into human brain evolution
Q38268917	Relatedness in the post-genomic era: is it still useful?
Q35247588	Relative extended haplotype homozygosity signals across breeds reveal dairy and beef specific signatures of selection
Q35153603	Repeated landmass reformation limits diversification in the widespread littoral zone mosquito Anopheles sundaicus sensu lato in the Indo-Oriental Region
Q37330829	Replication of the BANK1 genetic association with systemic lupus erythematosus in a European-derived population
Q42426913	Reprioritizing genetic associations in hit regions using LASSO-based resample model averaging
Q46570063	Reproductive isolation and introgression between sympatric Mimulus species
Q28606356	Resolving Evolutionary Relationships in Closely Related Species with Whole-Genome Sequencing Data
Q28750433	Resolving the evolution of extant and extinct ruminants with high-throughput phylogenomics
Q47719007	Revealing the selection history of adaptive loci using genome-wide scans for selection: an example from domestic sheep
Q28646285	Revisiting demographic processes in cattle with genome-wide population genetic analysis
Q33519375	Rheumatoid arthritis-associated gene-gene interaction network for rheumatoid arthritis candidate genes
Q36154431	Robust estimation of local genetic ancestry in admixed populations using a nonparametric Bayesian approach
Q34092600	SDHAF2 mutations in familial and sporadic paraganglioma and phaeochromocytoma
Q48010099	SERPINA1 and MAN1B1 polymorphisms are not linked to severe liver disease in a French cohort of alpha-1 antitrypsin deficiency children.
Q35063705	SNP imputation bias reduces effect size determination
Q83622865	SNP imputation in association studies
Q34336861	SNP interaction detection with Random Forests in high-dimensional genetic data
Q33512114	SNP_tools: A compact tool package for analysis and conversion of genotype data for MS-Excel
Q33890511	SNiPlay: a web-based tool for detection, management and analysis of SNPs. Application to grapevine diversity projects
Q56565523	STrengthening the REporting of Genetic Association Studies (STREGA)-an extension of the STROBE statement
Q33405556	STrengthening the REporting of Genetic Association Studies (STREGA): an extension of the STROBE statement
Q37314650	STrengthening the REporting of Genetic Association studies (STREGA)--an extension of the STROBE statement
Q34169848	Sample reproducibility of genetic association using different multimarker TDTs in genome-wide association studies: characterization and a new approach.
Q35126150	Sardinians genetic background explained by runs of homozygosity and genomic regions under positive selection.
Q30979619	Scanning and Filling: Ultra-Dense SNP Genotyping Combining Genotyping-By-Sequencing, SNP Array and Whole-Genome Resequencing Data
Q57167291	Scans for signatures of selection in Russian cattle breed genomes reveal new candidate genes for environmental adaptation and acclimation
Q34176262	Search for compound heterozygous effects in exome sequence of unrelated subjects.
Q90050761	Searching for Signatures of Cold Climate Adaptation in TRPM8 Gene in Populations of East Asian Ancestry
Q34500118	Seed filling in domesticated maize and rice depends on SWEET-mediated hexose transport
Q51588552	Segregation distortion in chicken and the evolutionary consequences of female meiotic drive in birds.
Q89185016	Selecting microhaplotypes optimized for different purposes
Q58696752	Selection Signatures Underlying Dramatic Male Inflorescence Transformation During Modern Hybrid Maize Breeding
Q35924591	Selection against recombinant hybrids maintains reproductive isolation in hybridizing Populus species despite F1 fertility and recurrent gene flow
Q50056306	Selection on Expected Maximum Haploid Breeding Values Can Increase Genetic Gain in Recurrent Genomic Selection
Q34336679	Selection signature analysis implicates the PC1/PCSK1 region for chicken abdominal fat content
Q34051071	Selection signatures in worldwide sheep populations
Q21563344	Sensitive detection of chromosomal segments of distinct ancestry in admixed populations
Q64101791	Sequence imputation from low density single nucleotide polymorphism panel in a black poplar breeding population
Q33952360	Sequence imputation of HPV16 genomes for genetic association studies
Q33567668	Sequence polymorphism in candidate genes for differences in winter plumage between Scottish and Scandinavian Willow Grouse (Lagopus lagopus)
Q51915462	Sequential haplotype scan methods for association analysis.
Q33393477	Shape-IT: new rapid and accurate algorithm for haplotype inference
Q43240741	Sibship analysis of associations between SNP haplotypes and a continuous trait with application to mammographic density.
Q33774661	Signatures of Selection for Environmental Adaptation and Zebu × Taurine Hybrid Fitness in East African Shorthorn Zebu
Q60946951	Signatures of Selection in Admixed Dairy Cattle in Tanzania
Q52897789	Signatures of local adaptation in lowland and highland teosintes from whole-genome sequencing of pooled samples.
Q48309499	Signatures of positive selection in African Butana and Kenana dairy zebu cattle.
Q28647751	Signatures of positive selection in East African Shorthorn Zebu: A genome-wide single nucleotide polymorphism analysis
Q59339812	Signatures of selection and environmental adaptation across the goat genome post-domestication
Q34012150	Signatures of selection in sheep bred for resistance or susceptibility to gastrointestinal nematodes
Q33318327	Simple and efficient analysis of disease association with missing genotype data
Q30603661	Simpute: an efficient solution for dense genotypic data
Q92162119	Simulation-Based Evaluation of Three Methods for Local Ancestry Deconvolution of Non-model Crop Species Genomes
Q34317474	Simultaneous analysis of multiple data types in pharmacogenomic studies using weighted sparse canonical correlation analysis
Q24658199	Singapore Genome Variation Project: a haplotype map of three Southeast Asian populations
Q92546491	Single and Multi-trait GWAS Identify Genetic Factors Associated with Production Traits in Common Bean Under Abiotic Stress Environments
Q33835639	Single nucleotide polymorphism and haplotype effects associated with somatic cell score in German Holstein cattle
Q37590587	Single nucleotide polymorphisms for feed efficiency and performance in crossbred beef cattle
Q33519363	Single versus multiple imputation for genotypic data.
Q36081601	Single- and Bayesian Multi-Marker Genome-Wide Association for Haematological Parameters in Pigs.
Q41412072	Single-nucleotide polymorphisms in CD8A and their associations with T lymphocyte subpopulations in pig.
Q58084796	Slower environmental change hinders adaptation from standing genetic variation
Q33366520	Small deletion variants have stable breakpoints commonly associated with alu elements.
Q46296377	Southern African ancient genomes estimate modern human divergence to 350,000 to 260,000 years ago.
Q31138000	SparRec: An effective matrix completion framework of missing data imputation for GWAS.
Q92988221	Sparse Convolutional Denoising Autoencoders for Genotype Imputation
Q33619913	Spatial normalization improves the quality of genotype calling for Affymetrix SNP 6.0 arrays
Q46256093	Spatial population genomics of the brown rat (Rattus norvegicus) in New York City
Q90051266	Species-Specific Duplication Event Associated with Elevated Levels of Nonstructural Carbohydrates in Sorghum bicolor
Q34436014	Strategies and utility of imputed SNP genotypes for genomic analysis in dairy cattle
Q56565671	Strengthening the reporting of genetic association studies (STREGA): an extension of the STROBE Statement
Q56565716	Strengthening the reporting of genetic association studies (STREGA): an extension of the STROBE statement
Q31152268	Structured Matrix Completion with Applications to Genomic Data Integration
Q58090917	Synaptogyrin-2 influences replication of Porcine circovirus 2
Q34162298	Systematic detection of epistatic interactions based on allele pair frequencies
Q41821529	Systems-level approaches reveal conservation of trans-regulated genes in the rat and genetic determinants of blood pressure in humans
Q47699005	TACR1 gene polymorphism and sex differences in postoperative nausea and vomiting
Q92632547	TNF-Block Genotypes Influence Susceptibility to HIV-Associated Sensory Neuropathy in Indonesians and South Africans
Q35151161	TNF-alpha gene (TNFA) variants increase risk for multi-organ dysfunction syndrome (MODS) in acute pancreatitis
Q100416099	Taste perception and lifestyle: insights from phenotype and genome data among Africans and Asians
Q34980826	Test of rare variant association based on affected sib-pairs
Q37369381	Testing the genetic predictions of a biogeographical model in a dominant endemic Eastern Pacific coral (Porites panamensis) using a genetic seascape approach
Q51933120	Testing untyped alleles (TUNA)-applications to genome-wide association studies.
Q37577197	The American Quarter Horse: population structure and relationship to the thoroughbred.
Q28600842	The Arabidopsis thaliana mobilome and its impact at the species level
Q36648710	The Effects of Both Recent and Long-Term Selection and Genetic Drift Are Readily Evident in North American Barley Breeding Populations
Q36291382	The Genomic Impacts of Drift and Selection for Hybrid Performance in Maize
Q34751729	The IBD process along four chromosomes
Q94544622	The Identification of Admixture Patterns Could Refine Pharmacogenetic Counseling: Analysis of a Population-Based Sample in Mexico
Q36347686	The Molecular Revolution in Cutaneous Biology: The Era of Genome-Wide Association Studies and Statistical, Big Data, and Computational Topics
Q42410109	The RANTES -28 g polymorphism is associated with primary sclerosing cholangitis
Q83400238	The RIPK2 gene: a positional candidate for tick burden supported by genetic associations in cattle and immunological response of knockout mouse
Q35685877	The Relationship between Runs of Homozygosity and Inbreeding in Jersey Cattle under Selection
Q40208191	The Time Scale of Recombination Rate Evolution in Great Apes
Q44098076	The accuracies of DNA-based estimates of genetic merit derived from Angus or multibreed beef cattle training populations
Q45167819	The admixed population structure in Danish Jersey dairy cattle challenges accurate genomic predictions
Q33845867	The buffering capacity of stems: genetic architecture of nonstructural carbohydrates in cultivated Asian rice, Oryza sativa
Q34169603	The conditional independences between variables derived from two independent identically distributed Markov random fields when pairwise order is ignored
Q34446672	The contribution of RNA decay quantitative trait loci to inter-individual variation in steady-state gene expression levels
Q28748948	The distribution and most recent common ancestor of the 17q21 inversion in humans
Q57278756	The distribution of SNP marker effects for faecal worm egg count in sheep, and the feasibility of using these markers to predict genetic merit for resistance to worm infections
Q36360745	The distribution of runs of homozygosity and selection signatures in six commercial meat sheep breeds.
Q92609806	The evolution of sexual signaling is linked to odorant receptor tuning in perfume-collecting orchid bees
Q41434836	The evolutionary basis of premature migration in Pacific salmon highlights the utility of genomics for informing conservation
Q92088689	The evolutionary history and genomics of European blackcap migration
Q35197254	The evolutionary history of Darwin's finches: speciation, gene flow, and introgression in a fragmented landscape
Q34806370	The genetic architecture of maize stalk strength
Q46607553	The genetic architecture of reproductive isolation during speciation-with-gene-flow in lake whitefish species pairs assessed by RAD sequencing
Q37596597	The genetic basis and experimental evolution of inbreeding depression in Caenorhabditis elegans.
Q36266110	The genetics of feed conversion efficiency traits in a commercial broiler line
Q33742053	The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color
Q34344526	The genomic signature of crop-wild introgression in maize
Q28284286	The genomic signature of dog domestication reveals adaptation to a starch-rich diet
Q36320150	The genomics of ecological vicariance in threespine stickleback fish
Q28290575	The genomics of selection in dogs and the parallel evolution between dogs and humans
Q21144962	The history of African gene flow into Southern Europeans, Levantines, and Jews
Q33728499	The impact of genetic relationship information on genomic breeding values in German Holstein cattle
Q98463453	The impact of transposable elements on tomato diversity
Q34155352	The importance of information on relatives for the prediction of genomic breeding values and the implications for the makeup of reference data sets in livestock breeding schemes
Q37120242	The importance of phase information for human genomics
Q35222799	The neuropeptide galanin and variants in the GalR1 gene are associated with nicotine dependence
Q43422085	The opportunity for balancing selection in experimental populations of Caenorhabditis elegans
Q46538930	The performance of phylogenetic algorithms in estimating haplotype genealogies with migration
Q42069586	The population genomics of repeated evolution in the blind cavefish Astyanax mexicanus
Q41001286	The same ELA class II risk factors confer equine insect bite hypersensitivity in two distinct populations.
Q33579841	The use of family relationships and linkage disequilibrium to impute phase and missing genotypes in up to whole-genome sequence density genotypic data.
Q37594612	The utility of low-density genotyping for imputation in the Thoroughbred horse
Q34038368	The whereabouts of an ancient wanderer: global phylogeography of the solitary ascidian Styela plicata
Q42369086	To Identify Associations with Rare Variants, Just WHaIT: Weighted Haplotype and Imputation-Based Tests
Q28259714	Turkish population structure and genetic ancestry reveal relatedness among Eurasian populations
Q58752808	Turning Vice into Virtue: Using Batch-Effects to Detect Errors in Large Genomic Data Sets
Q37693206	Two functional lupus-associated BLK promoter variants control cell-type- and developmental-stage-specific transcription
Q35683645	Two genomic regions contribute disproportionately to geographic differentiation in wild barley
Q33867211	USING LINEAR PREDICTORS TO IMPUTE ALLELE FREQUENCIES FROM SUMMARY OR POOLED GENOTYPE DATA.
Q34469723	USING POPULATION GENOMICS TO DETECT SELECTION IN NATURAL POPULATIONS: KEY CONCEPTS AND METHODOLOGICAL CONSIDERATIONS.
Q31063801	Uncovering Adaptation from Sequence Data: Lessons from Genome Resequencing of Four Cattle Breeds
Q31132499	Understanding the accuracy of statistical haplotype inference with sequence data of known phase
Q35692907	Unique characteristics of the Ainu population in Northern Japan
Q116201948	Untangling the complex: molecular patterns in Trachylepis variegata and T. punctulata (Reptilia: Scincidae)
Q56501484	Urban rat races: spatial population genomics of brown rats () compared across multiple cities
Q46419343	Use of modern tomato breeding germplasm for deciphering the genetic control of agronomical traits by Genome Wide Association study.
Q42238358	Use of partial least squares regression to impute SNP genotypes in Italian cattle breeds.
Q34100207	Use of the gamma method for self-contained gene-set analysis of SNP data
Q57646588	User considerations in assessing pharmacogenomic tests and their clinical support tools
Q33327756	Using an evolutionary algorithm and parallel computing for haplotyping in a general complex pedigree with multiple marker loci
Q36991883	Using genome-wide association analysis to characterize environmental sensitivity of milk traits in dairy cattle
Q36808806	Using population mixtures to optimize the utility of genomic databases: linkage disequilibrium and association study design in India
Q57278757	Using the genomic relationship matrix to predict the accuracy of genomic selection
Q33603074	Utilizing genotype imputation for the augmentation of sequence data
Q34496975	Variable-Selection Emerges on Top in Empirical Comparison of Whole-Genome Complex-Trait Prediction Methods
Q58449651	Variant Calling Using NGS Data in European Aspen (Populus tremula)
Q36817544	Variants in the 15q25 gene cluster are associated with risk for schizophrenia and bipolar disorder
Q34714692	Variants in the 3' UTR of general Transcription factor IIF, polypeptide 2 affect female calving efficiency in Japanese Black cattle
Q37025072	Variation in Linked Selection and Recombination Drive Genomic Divergence during Allopatric Speciation of European and American Aspens
Q37072970	Variation in NPC1, the gene encoding Niemann-Pick C1, a protein involved in intracellular cholesterol transport, is associated with Alzheimer disease and/or aging in the Polish population
Q42371069	Variation in Recombination Rate and Its Genetic Determinism in Sheep Populations.
Q28728624	Variation of BMP3 contributes to dog breed skull diversity
Q57306045	Vascular endothelial growth factor gene polymorphisms and ovarian cancer survival
Q35820119	Whole genome SNP genotype piecemeal imputation
Q33260502	Whole genome association mapping by incompatibilities and local perfect phylogenies
Q42595771	Whole genome identity-by-descent determination
Q35767987	Whole-Genome Analysis of Diversity and SNP-Major Gene Association in Peach Germplasm
Q34624774	Whole-genome haplotyping approaches and genomic medicine
Q46353647	Whole-genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine-scale recombination rate variation in birds
Q52580355	Whole-genome sequences of 89 Chinese sheep suggest role of RXFP2 in the development of unique horn phenotype as response to semi-feralization.
Q33994830	Whole-genome sequencing of six dog breeds from continuous altitudes reveals adaptation to high-altitude hypoxia
Q36662133	Whole-genome sequencing reveals small genomic regions of introgression in an introduced crater lake population of threespine stickleback
Q64061729	Widespread gene duplication and adaptive evolution in the RNA interference pathways of the Drosophila obscura group
Q55082220	Widespread, long-term admixture between grey wolves and domestic dogs across Eurasia and its implications for the conservation status of hybrids.
Q28482238	WinHAP: an efficient haplotype phasing algorithm based on scalable sliding windows
Q45884287	Wolbachia-mediated persistence of mtDNA from a potentially extinct species
Q37454646	X-linked variation in immune response in Drosophila melanogaster
Q35970987	Xenobiotic metabolizing gene variants and renal cell cancer: a multicenter study
Q45641817	cnvHap: an integrative population and haplotype-based multiplatform model of SNPs and CNVs
Q33933078	fcGENE: a versatile tool for processing and transforming SNP datasets
Q34761807	iXora: exact haplotype inferencing and trait association.
Q92212133	perfectphyloR: An R package for reconstructing perfect phylogenies
Q34188982	rehh: an R package to detect footprints of selection in genome-wide SNP data from haplotype structure
Q89480995	scHaplotyper: haplotype construction and visualization for genetic diagnosis using single cell DNA sequencing data

P356	DOI	10.1086/502802
P3181	OpenCitations bibliographic resource ID	495452
P932	PMC publication ID	1424677
P698	PubMed publication ID	16532393
P5875	ResearchGate publication ID	7246897

P50	author	Paul Scheet	Q28050083
P2093	author name string	Matthew Stephens
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P433	issue	4
P407	language of work or name	English	Q1860
P921	main subject	statistics	Q12483
P304	page(s)	629-44
P577	publication date	2006-04-01
P1433	published in	American Journal of Human Genetics	Q4744249
P1476	title	A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase
P478	volume	78

A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase

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