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. 2022 Jan 21;12(2):175. doi: 10.3390/biom12020175

Table 4.

Single- and multi-omics integration results for ras2Δ. First block shows GSEA for transcriptomics with adjusted p-value < 0.05, arranged in ascending order; second block shows MetaboAnalystR pathway enrichment analysis for metabolomics with combined p-value < 0.05, arranged in ascending order; third block shows MetaboAnalystR joint pathway analysis with adjusted p-value < 0.05, arranged in ascending order, as detailed in Methods.

Transcriptomics Metabolomics Integration
Enriched Pathways Adjusted
p-Value
Enriched Pathways Combined p-Value Enriched Pathways Adjusted
p-Value
Starch and sucrose metabolism 0.0065 Lysine biosynthesis 1.00 × 10−5 Galactose metabolism 1.24 × 10−15
Oxidative phosphorylation 0.0065 Glyoxylate and dicarboxylate metabolism 0.0005 Starch and sucrose metabolism 1.68 × 10−11
Ribosome biogenesis in eukaryotes 0.0065 Glycine, serine and threonine metabolism 0.0009 Glycolysis or Gluconeogenesis 6.26 × 10−8
Ribosome 0.0065 Arginine biosynthesis 0.0017 Glycine, serine and threonine metabolism 4.30 × 10−6
RNA polymerase 0.0092 Cysteine and methionine metabolism 0.0028 ABC transporters 1.03 × 10−5
Galactose metabolism 0.0169 Taurine and hypotaurine metabolism 0.0043 Pentose phosphate pathway 2.27 × 10−5
Autophagy 0.0169 Amino sugar and nucleotide sugar metabolism 0.0043 Cysteine and methionine metabolism 2.27 × 10−5
Meiosis 0.0332 Galactose metabolism 0.0043 Fructose and mannose metabolism 0.0002
Spliceosome 0.0458 Butanoate metabolism 0.0095 Amino sugar and nucleotide sugar metabolism 0.0002
Lysine degradation 0.0098 Arginine biosynthesis 0.0003
Aminoacyl-tRNA biosynthesis 0.0098 Purine metabolism 0.0005
Starch and sucrose metabolism 0.0204 Glyoxylate and dicarboxylate metabolism 0.0009
Alanine, aspartate and glutamate metabolism 0.0372 Peroxisome 0.0014
Fructose and mannose metabolism 0.0384 Methane metabolism 0.0057
Nitrogen metabolism 0.0392 Alanine, aspartate and glutamate metabolism 0.0057
Phosphatidylinositol signaling system 0.0429 Lysine biosynthesis 0.0213
Nitrogen metabolism 0.0255
Citrate cycle (TCA cycle) 0.0338
Vitamin B6 metabolism 0.0385
Inositol phosphate metabolism 0.0390
Monobactam biosynthesis 0.0392
Tryptophan metabolism 0.0464