Genotype-phenotype interaction analysis software tools and databases

Genotype-phenotype analysis applications

Recent technological advances have expanded the breadth of available omic data, from whole-genome sequencing data, to extensive transcriptomic, methylomic and metabolomic data. A key goal of analyses of these data is the identification of effective models that predict phenotypic…

Genotype-phenotype interaction analysis software tools and databases

Most Recent Tools

GMRP
Desktop

GMRP GWAS-based Mendelian Randomization and Path analyses

Performs correlation and path analyses to construct path diagrams of causal…

Performs correlation and path analyses to construct path diagrams of causal variables to the disease. GMRP can perform analyses of Mendelian Randomization (MR), correlation, path of causal variables…

INPower
Desktop

INPower

Calculates the number of susceptibility single nucleotide polymorphisms (SNPs)…

Calculates the number of susceptibility single nucleotide polymorphisms (SNPs) and power of future studies. INPower uses the effect sizes for a set of known susceptibility SNPs and the power of…

FastCMH
Desktop

FastCMH

Discovers genomic regions of contiguous Single Nucleotide Polymorphisms (SNPs)…

Discovers genomic regions of contiguous Single Nucleotide Polymorphisms (SNPs) that are associated to a phenotype of interest under a model of genetic heterogeneity. FastCMH can drastically reduce…

ASGSCA
Desktop

ASGSCA

Provides tools to model and test the association between multiple genotypes and…

Provides tools to model and test the association between multiple genotypes and multiple traits, taking into account the prior biological knowledge. ASGSCA is an Association Studies for multiple…

Most Popular Tools

PLINK
Desktop

PLINK

A free, open-source whole genome association analysis toolset, designed to…

A free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner. The focus of PLINK is purely on…

CADD
Desktop

CADD Combined Annotation Dependent Depletion

Scores the deleteriousness of single nucleotide variants as well as…

Scores the deleteriousness of single nucleotide variants as well as insertion/deletions variants in the human genome. CADD integrates many diverse annotations into a quantitative score. The basis of…

i-GSEA4GWAS
Web

i-GSEA4GWAS improved GSEA for GWAS

A web-based resource for analysis of GWAS data to identify pathways/gene sets…

A web-based resource for analysis of GWAS data to identify pathways/gene sets correlated to certain traits by implementing an improved Gene Set Enrichment Analysis (i-GSEA) approach. i-GSEA4GWAS aims…

PANOGA
Web

PANOGA Pathway and Network Oriented GWAS Analysis

A web server for post-genome-wide associatio analysis. PANOGA supports pathway…

A web server for post-genome-wide associatio analysis. PANOGA supports pathway and network-oriented SNP–phenotype association analysis in a single system without requiring any additional manual…

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