ArticleBriefings in bioinformatics2018
Methodological implementation of mixed linear models in multi-locus genome-wide association studies.
Article in Briefings in bioinformatics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 239 papers, 1 of them a synthesis that pooled it.
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Who cites it
239 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Genome-wide association study of esophageal squamous cell cancer identifies shared and distinct risk variants in African and Chinese populations.American journal of human genetics · 2023Pooled it
- Genomic insights into end-use grain quality and nutritional traits of an ancient Indian dwarf wheat ( Triticum sphaerococcum Percival) population using a multi-locus genome-wide association study.Journal of the science of food and agriculture · 2026Article
- Identification of septoria nodorum blotch susceptibility genes in hard winter wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Association mapping integrated with image-based phenomics identifies SNPs and candidate genes underpinning fruit morphology and development in chile pepper (Capsicum annum L.).G3 (Bethesda, Md.) · 2026Article
- Genetic dissection of gluten characteristics based on single- and multi-locus genome-wide association studies in wheat (Food chemistry. Molecular sciences · 2026Article
- Multi-locus genome-wide association study on the rheological traits in wheat flour dough.BMC genomics · 2026Article
- Multi-locus GWAS to unravel the genetic architecture of grain iron, zinc and protein contents in wheat (Triticum aestivum L.) genotypes evaluated over multiple locations and years.BMC plant biology · 2026Article
- Regional heritability mapping reveals genomic regions and candidate defense genes for multi-race anthracnose resistance in Phaseolus vulgaris.Scientific reports · 2026Article
- Multi-locus genome-wide association mapping reveals loci underlying malt quality traits in heterogeneous Ethiopian Barley (Hordeum vulgare L.) germplasm.Scientific reports · 2026Article
- A genome-wide association study to elucidate the genetic basis of the cottonseed protein content in Upland cotton (Breeding science · 2026Article
- Multilocus genome-wide association study reveals genomic regions associated with resistance to red leaf blotch in soybean.BMC plant biology · 2026Article
- Integrated single marker scanning and sparse Bayesian learning improves performance of detection for GWAS.Plant methods · 2026Article
- Genome-Wide Identification of Genomic Regions Associated with Body Weight and Morphometric Traits in Awassi Sheep.Animals : an open access journal from MDPI · 2026Article
- Multi-locus genome-wide association studies of aluminum stress indices in shoot and root traits at seedling stage in Ethiopian durum wheat (Triticum turgidum ssp. durum) genotypes.BMC plant biology · 2026Article
- Genome-wide association study identifies consistent genomic loci for yield and nutritional quality in Ethiopian sorghum landraces.The plant genome · 2026Article
- Unveiling the genetic determinants of germination efficiency in common bermudagrass: A genome-wide association study.The plant genome · 2026Article
- Genome-wide and co-expression network dissection ofFrontiers in plant science · 2026Article
- Identification of key genes in chickpea transcriptomics and the development of ChickpeaOmicsR as a comprehensive resource to advance breeding and genomic studies.Frontiers in bioinformatics · 2026Article
- Mining genes, genomic selection and simulation breeding on hundred-seed weight using a four-way RIL population.Frontiers in plant science · 2026Article
- Genome-wide association studies and candidate gene identification under salinity stress in bread wheat (Frontiers in plant science · 2026Article
179 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The mixed linear model has been widely used in genome-wide association studies (GWAS), but its application to multi-locus GWAS analysis has not been explored and assessed. Here, we implemented a fast multi-locus random-SNP-effect EMMA (FASTmrEMMA) model for GWAS. The model is built on random single nucleotide polymorphism (SNP) effects and a new algorithm. This algorithm whitens the covariance matrix of the polygenic matrix K and environmental noise, and specifies the number of nonzero eigenvalues as one. The model first chooses all putative quantitative trait nucleotides (QTNs) with ≤ 0.005 P-values and then includes them in a multi-locus model for true QTN detection. Owing to the multi-locus feature, the Bonferroni correction is replaced by a less stringent selection criterion. Results from analyses of both simulated and real data showed that FASTmrEMMA is more powerful in QTN detection and model fit, has less bias in QTN effect estimation and requires a less running time than existing single- and multi-locus methods, such as empirical Bayes, settlement of mixed linear model under progressively exclusive relationship (SUPER), efficient mixed model association (EMMA), compressed MLM (CMLM) and enriched CMLM (ECMLM). FASTmrEMMA provides an alternative for multi-locus GWAS.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.