ArticleNucleic acids research2020
AraPheno and the AraGWAS Catalog 2020: a major database update including RNA-Seq and knockout mutation data for Arabidopsis thaliana.
Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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47 citing papers in PubMed.
- Article
- Genome-wide modelling of plant transcription factor binding captures regulatory variants associated with phenotypic traits.Nature communications · 2026Article
- Natural variation uncouples HSFA2 induction from volatile-induced thermotolerance in Arabidopsis thaliana.Plant molecular biology · 2026Article
- Predicted protein 3D structures provide essential insights into the genetic architecture underlying phenotypic diversity in maize.Genome research · 2026Article
- A biosynthetic gene cluster for three post-chorismate pathways in Arabidopsis.Nature plants · 2026Article
- Mutations of short tandem repeats explain abundant trait heritability in Arabidopsis.Genome biology · 2025Article
- Advancing ecological and evolutionary research in Arabidopsis: Extending insights into model and nonmodel plants.The Plant cell · 2025Review
- Arabidopsis as a model for translational research.The Plant cell · 2025Review
- A Genome-Wide Association Screen for Genes Affecting Leaf Trichome Development and Epidermal Metal Accumulation in Arabidopsis.Plant, cell & environment · 2025Article
- Reducing herbivory in mixed planting by genomic prediction of neighbor effects in the field.Nature communications · 2024Article
- The benefits of permutation-based genome-wide association studies.Journal of experimental botany · 2024Article
- Biologically meaningful genome interpretation models to address data underdetermination for the leaf and seed ionome prediction in Arabidopsis thaliana.Scientific reports · 2024Article
- PlantFUNCO: Integrative Functional Genomics Database Reveals Clues into Duplicates Divergence Evolution.Molecular biology and evolution · 2024Article
- Population-level annotation of lncRNAs in Arabidopsis reveals extensive expression variation associated with transposable element-like silencing.The Plant cell · 2023Article
- Genotype and phenotype data standardization, utilization and integration in the big data era for agricultural sciences.Database : the journal of biological databases and curation · 2023Review
- Genetic adaptations in the population history of Arabidopsis thaliana.G3 (Bethesda, Md.) · 2023Article
- DNA language models are powerful predictors of genome-wide variant effects.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Integration of eQTL and GWAS analysis uncovers a genetic regulation of natural ionomic variation in Arabidopsis.Plant cell reports · 2023Article
- Pan-European study of genotypes and phenotypes in the Arabidopsis relative Cardamine hirsuta reveals how adaptation, demography, and development shape diversity patterns.PLoS biology · 2023Article
- A cryptic natural variant allele of BYPASS2 suppresses the bypass1 mutant phenotype.Plant physiology · 2023Article
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10 authors.
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Abstract
Genome-wide association studies (GWAS) are integral for studying genotype-phenotype relationships and gaining a deeper understanding of the genetic architecture underlying trait variation. A plethora of genetic associations between distinct loci and various traits have been successfully discovered and published for the model plant Arabidopsis thaliana. This success and the free availability of full genomes and phenotypic data for more than 1,000 different natural inbred lines led to the development of several data repositories. AraPheno (https://arapheno.1001genomes.org) serves as a central repository of population-scale phenotypes in A. thaliana, while the AraGWAS Catalog (https://aragwas.1001genomes.org) provides a publicly available, manually curated and standardized collection of marker-trait associations for all available phenotypes from AraPheno. In this major update, we introduce the next generation of both platforms, including new data, features and tools. We included novel results on associations between knockout-mutations and all AraPheno traits. Furthermore, AraPheno has been extended to display RNA-Seq data for hundreds of accessions, providing expression information for over 28 000 genes for these accessions. All data, including the imputed genotype matrix used for GWAS, are easily downloadable via the respective databases.
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