GOpro: GOpro: find the most characteristic gene ontology terms for...

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Based on the gene expressions find the structure somewhat comparable to gene signature. From all given genes, determine which are significantly different between sets. These sets may relate to different health conditions of patients, i.e. different types of cancer. Then divide interesting genes into subsets. Genes belong to a particular subset if they share the same feature. There are two implemented methods that can be used to create genes' subsets. The first method is so-called all pairwise comparisons by Tukey's procedure. Genes that have the same profile (a result of all comparisons) are assigned to one subset. The second way of determining subsets is a method of hierarchical clustering. When all genes are divided into subsets, then for each subset all relevant GO terms are searched for in database. Each found GO terms is tested using Fisher's test to find out which of them are the most characteristic for the given subset of genes.

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mi2-warsaw/GOpro documentation built on May 22, 2019, 8:57 p.m.