Table 2 The parameters and the settings in Gene Set Enrich Analysis (GSEA)
Chip Platform | Human_Gene_Symbol_with_Remapping_MSigDB.v7.4.chip |
|---|---|
Gene sets database | C2.cp.kegg.v7.4.symbols.gmt [Curated] |
Number of permutations | 1000 |
Permutation type | gene_set |
Enrichment statistics | Weighted |
Metric for ranking genes | Signal2Noise |
Min size (exclude smaller sets) | 15 |
Max size (exclude larger sets) | 500 |
Collapsing mode for probe sets \(\ge 1\) gene | Max_probe |
Normalize mode | meandiv |