This case study uses HTSanalyzeR2 to perform gene set over-representation analysis, enrichment analysis and enriched subnetwork analyses on a common gene expression profile.
Porvide 3 case study for reference
This case study uses HTSanalyzeR2 to perform gene set over-representation analysis, enrichment analysis and enriched subnetwork analyses on a common gene expression profile.
This case study uses a time series CRISPR genome-wide drop-out data as a demonstration to perform time series analysis.
In case if you only have a list of genes and want to do hypergeometric test with gene sets having known functions
Contains the preprocessing, Hypergeometrics, Enrichment Subnetwork
a preprocess step including invalid input data removing, duplication removing, initial gene identifiers converting to Entrez ID and phenotype ordering.
This part will briefly introduce Hypergeometric Distribution and the test.
You can also perform subnetwork analysis (Beisser (2010), Dittrich MT (2008)) to extract the subnetwork enriched with nodes which are associated with a significant phenotype using HTSanalyzeR2.
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