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Table 1 GO enrichment by CCA and PCA

From: Simple integrative preprocessing preserves what is shared in data sources

GO term PCA CCA Baseline
Response to biotic stimulus 53, 2.2E-15 61, 2.7E-19 55, 6.2E-17
Defense response 51, 1.1E-14 58, 7.3E-18 53, 3.4E-16
Immune response 47, 3.8E-13 54, 9.5E-17 48, 3.9E-14
Response to pest, pathogen, parasite 29, 7.0E-09 30, 1.4E-08 26, 1.4E-06
Response to other organism 29, 3.0E-08 30, 6.1E-08 26, 4.8E-06
Response to stimulus 61, 6.4E-07 75, 4.1E-12 62, 2.0E-07
Response to stress 35, 9.5E-06 36, 3.6E-05 31, 1.5E-03
Organismal physiological process 54, 5.7E-05 68, 4.8E-10 55, 2.0E-05
Response to external stimulus 22, 1.8E-04 22, 9.4E-04 19, 1.5E-02
Response to wounding 19, 3.3E-04 20, 2.9E-04 16, 3.8E-02
  1. The enriched gene ontology terms from the biological processes category with p-values (Bonferroni corrected) lower than 0.01. Both CCA and PCA result in the same 10 terms, and here they are sorted according to the p-value of the gene list obtained with PCA preprocessing. Each cell lists the count of genes in that term, together with the p-value (Bonferroni corrected). In 9 out of 10 the count is higher for CCA, showing that it is able to capture relevant genes with better accuracy, avoiding outliers. The baseline method shares 8 common GO terms with CCA/PCA, and the two different GO enrichments are Antigen presentation, endogeneous antigen (8, 1.5E-4) and Antigen processing, endogeneous antigen via MHC class I (7, 6.3E-3).