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GWAS-Flow : A GPU accelerated framework for efficient permutation based genome-wide association studies

https://doi.org/10.1101/783100
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1016/j.cell.2016.05.063openalex-snapshot
1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana
inferredcites →https://doi.org/10.1038/nbt0308-256bopenalex-snapshot
1000 Genomes project
inferredcites →https://doi.org/10.1038/ng.2310openalex-snapshot
Genome-wide efficient mixed-model analysis for association studies
inferredcites →https://doi.org/10.1038/ng.2314openalex-snapshot
An efficient multi-locus mixed-model approach for genome-wide association studies in structured populations
inferredcites →https://doi.org/10.1038/ng.2376openalex-snapshot
A mixed-model approach for genome-wide association studies of correlated traits in structured populations
inferredcites →https://doi.org/10.1038/ng.546openalex-snapshot
Mixed linear model approach adapted for genome-wide association studies
inferredcites →https://doi.org/10.1038/ng.548openalex-snapshot
Variance component model to account for sample structure in genome-wide association studies
inferredcites →https://doi.org/10.1038/nrg1521openalex-snapshot
Genome-wide association studies for common diseases and complex traits
inferredcites →https://doi.org/10.1038/nrm1583openalex-snapshot
Friendly rivalry
inferredcites →https://doi.org/10.1073/pnas.1530509100openalex-snapshot
Statistical significance for genomewide studies
inferredcites →https://doi.org/10.1086/519795openalex-snapshot
PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses
inferredcites →https://doi.org/10.1093/nar/gkw986openalex-snapshot
AraPheno: a public database for Arabidopsis thaliana phenotypes
inferredcites →https://doi.org/10.1093/nar/gkx954openalex-snapshot
The AraGWAS Catalog: a curated and standardized Arabidopsis thaliana GWAS catalog
inferredcites →https://doi.org/10.1101/003905openalex-snapshot
LIMIX: genetic analysis of multiple traits
inferredcites →https://doi.org/10.1186/1746-4811-9-29openalex-snapshot
The advantages and limitations of trait analysis with GWAS: a review
inferredcites →https://doi.org/10.1186/1756-0381-7-9openalex-snapshot
An adaptive permutation approach for genome-wide association study: evaluation and recommendations for use
inferredcites →https://doi.org/10.1186/2047-217x-3-8openalex-snapshot
The 3,000 rice genomes project: new opportunities and challenges for future rice research
inferredcites →https://doi.org/10.1371/journal.pone.0177459openalex-snapshot
Singularity: Scientific containers for mobility of compute
inferredcites →https://doi.org/10.21037/atm.2018.04.05openalex-snapshot
The search for gene-gene interactions in genome-wide association studies: challenges in abundance of methods, practical considerations, and biological interpretation
inferredcites →https://doi.org/10.25080/majora-7b98e3ed-01eopenalex-snapshot
Proceedings of the 14th Python in Science Conference
inferredcites →https://doi.org/10.25080/majora-92bf1922-00aopenalex-snapshot
Data Structures for Statistical Computing in Python
inferredcites →https://doi.org/10.3389/fgene.2011.00109openalex-snapshot
Six Degrees of Epistasis: Statistical Network Models for GWAS

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/b978-0-323-89778-5.00019-2openalex-snapshot
Computational approaches toward single-nucleotide polymorphism discovery and its applications in plant breeding
inferred← citeshttps://doi.org/10.1093/bioadv/vbaf145openalex-snapshot
FPGA acceleration of GWAS permutation testing
inferred← citeshttps://doi.org/10.1093/bioinformatics/btac455openalex-snapshot
Efficient permutation-based genome-wide association studies for normal and skewed phenotypic distributions
inferred← citeshttps://doi.org/10.1093/molbev/msab208openalex-snapshot
Global Genetic Heterogeneity in Adaptive Traits
inferred← citeshttps://doi.org/10.1093/nar/gkz925openalex-snapshot
AraPheno and the AraGWAS Catalog 2020: a major database update including RNA-Seq and knockout mutation data for Arabidopsis thaliana
inferred← citeshttps://doi.org/10.1101/2021.05.07.443185openalex-snapshot
Genetic variation associated with plastic and homeostatic growth responses to drought in Arabidopsis
inferred← citeshttps://doi.org/10.1101/2022.08.13.503863openalex-snapshot
DNARecords: An extensible sparse format for petabyte scale genomics analysis
inferred← citeshttps://doi.org/10.1101/2024.09.15.613119openalex-snapshot
GWA-X: An Extensible GPU Accelerated Package for Permutation Testing in Genome-Wide Association Studies
inferred← citeshttps://doi.org/10.21285/2227-2925-2022-12-4-599-604openalex-snapshot
Bioinformatic method for determining single nucleotide polymorphisms on the example of gene WIN in Glycine max
inferred← citeshttps://doi.org/10.5772/intechopen.91886openalex-snapshot
Single Nucleotide Polymorphisms (SNPs) in Plant Genetics and Breeding
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