ArticlePlants (Basel, Switzerland)2020
PAST: The Pathway Association Studies Tool to Infer Biological Meaning from GWAS Datasets.
Article in Plants (Basel, Switzerland), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Insights into the genetic and biochemical basis of Gibberella ear rot resistance in maize.The plant genome · 2025Article
- Association study of crude seed protein and fat concentration in a USDA pea diversity panel.The plant genome · 2025Article
- Genome-wide association study and pathway analysis to decipher loci associated with Fusarium ear rot resistance in tropical maize germplasm.Genetic resources and crop evolution · 2024Article
- Genes and genetic mechanisms contributing to fall armyworm resistance in maize.The plant genome · 2023Article
- Wheat Omics: Advancements and Opportunities.Plants (Basel, Switzerland) · 2023Review
- Inhibition of ethylene involved in resistance toFrontiers in plant science · 2023Article
- Comparative Analysis of Multiple GWAS Results Identifies Metabolic Pathways Associated with Resistance toToxins · 2022Article
- Genetic mapping of sorghum resistance to an Illinois isolate of Colletotrichum sublineola.The plant genome · 2022Article
- Enlightening the molecular mechanisms of type 2 diabetes with a novel pathway clustering and pathway subnetwork approach.Turkish journal of biology = Turk biyoloji dergisi · 2022Article
- Genome-wide association analysis and pathway enrichment provide insights into the genetic basis of photosynthetic responses to drought stress in Persian walnut.Horticulture research · 2022Article
- Genome-wide association study reveals the genetic architecture of root hair length in maize.BMC genomics · 2021Article
- Article
- Appraising the Genetic Architecture of Kernel Traits in Hexaploid Wheat Using GWAS.International journal of molecular sciences · 2020Article
- Breeding Crops for Enhanced Food Safety.Frontiers in plant science · 2020Review
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Authors and funding
5 authors.
Funding
Abstract
In recent years, a bioinformatics method for interpreting genome-wide association study (GWAS) data using metabolic pathway analysis has been developed and successfully used to find significant pathways and mechanisms explaining phenotypic traits of interest in plants. However, the many scripts implementing this method were not straightforward to use, had to be customized for each project, required user supervision, and took more than 24 h to process data. PAST (Pathway Association Study Tool), a new implementation of this method, has been developed to address these concerns. PAST has been implemented as a package for the R language. Two user-interfaces are provided; PAST can be run by loading the package in R and calling its methods, or by using an R Shiny guided user interface. In testing, PAST completed analyses in approximately half an hour to one hour by processing data in parallel and produced the same results as the previously developed method. PAST has many user-specified options for maximum customization. Thus, to promote a powerful new pathway analysis methodology that interprets GWAS data to find biological mechanisms associated with traits of interest, we developed a more accessible, efficient, and user-friendly tool. These attributes make PAST accessible to researchers interested in associating metabolic pathways with GWAS datasets to better understand the genetic architecture and mechanisms affecting phenotypes.
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