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Table 6 Enrichment Analysis (C9Plus vs. Control)

From: Extensive transcriptomic study emphasizes importance of vesicular transport in C9orf72 expansion carriers

Module Dir Source Order Process/Pathway P-value FDR
MEskyblue Up KEGG 1 KEGG_MELANOGENESIS 4.24E-04 0.04
2 KEGG_NOTCH_SIGNALING_PATHWAY 7.46E-04 0.06
GO-BP 1 GO_POSITIVE_REGULATION_OF_BIOSYNTHETIC_PROCESS 5.27E-05 0.008
2 GO_REGULATION_OF_INTRACELLULAR_STEROID_HORMONE_RECEPTOR_SIGNALING_PATHWAY 5.66E-05 0.009
MEpaleturquoise Up KEGG 1 KEGG_NEUROACTIVE_LIGAND_RECEPTOR_INTERACTION 1.09E-04 0.01
2 KEGG_TAURINE_AND_HYPOTAURINE_METABOLISM 1.80E-04 0.02
GO-BP 1 GO_CEREBRAL_CORTEX_GABAERGIC_INTERNEURON_DIFFERENTIATION 7.95E-09 3.97E-06
2 GO_GABAERGIC_NEURON_DIFFERENTIATION 1.87E-08 8.41E-06
MEturquoise Up KEGG 1 KEGG_NEUROACTIVE_LIGAND_RECEPTOR_INTERACTION 4.56E-15 2.26E-12
2 KEGG_CALCIUM_SIGNALING_PATHWAY 2.44E-06 6.06E-04
GO-BP 1 GO_SYNAPTIC_SIGNALING 3.79E-33 1.06E-29
2 GO_CELL_CELL_SIGNALING 3.59E-23 8.31E-20
MEyellow Down KEGG 1 KEGG_PEROXISOME 5.76E-07 1.71E-04
2 KEGG_VALINE_LEUCINE_AND_ISOLEUCINE_DEGRADATION 1.60E-05 0.003
GO-BP 1 GO_SMALL_MOLECULE_METABOLIC_PROCESS 1.44E-16 2.10E-13
2 GO_ORGANIC_ACID_CATABOLIC_PROCESS 1.23E-14 1.39E-11
MEgreen Down KEGG 1 KEGG_CITRATE_CYCLE_TCA_CYCLE 6.15E-05 0.009
2 KEGG_PYRUVATE_METABOLISM 0.002 0.11
GO-BP 1 GO_ORGANIC_ACID_METABOLIC_PROCESS 6.24E-08 2.49E-05
2 GO_GOLGI_VESICLE_TRANSPORT 7.76E-08 2.98E-05
MEorange Down KEGG 1 KEGG_PARKINSONS_DISEASE 4.93E-34 1.10E-30
2 KEGG_OXIDATIVE_PHOSPHORYLATION 3.39E-32 5.04E-29
GO-BP 1 GO_NUCLEOSIDE_TRIPHOSPHATE_METABOLIC_PROCESS 5.35E-29 1.46E-25
2 GO_OXIDATIVE_PHOSPHORYLATION 1.74E-28 4.63E-25
MEtan Down KEGG 1 KEGG_GLYCINE_SERINE_AND_THREONINE_METABOLISM 5.51E-07 1.71E-04
2 KEGG_FATTY_ACID_METABOLISM 6.55E-07 1.83E-04
GO-BP 1 GO_OXIDATION_REDUCTION_PROCESS 8.53E-18 1.40E-14
2 GO_BIOLOGICAL_ADHESION 1.39E-15 1.93E-12
MEblack‘ Up KEGG 1 KEGG_BASAL_TRANSCRIPTION_FACTORS 0.002 0.11
2 KEGG_SPLICEOSOME 0.02 0.48
GO-BP 1 GO_NEGATIVE_REGULATION_OF_NITROGEN_COMPOUND_METABOLIC_PROCESS 6.04E-09 3.11E-06
2 GO_CHROMATIN_MODIFICATION 4.90E-08 2.00E-05
MEdarkred Down KEGG 1 KEGG_LYSOSOME 0.004 0.18
2 KEGG_STEROID_BIOSYNTHESIS 0.005 0.19
GO-BP 1 GO_ENSHEATHMENT_OF_NEURONS 4.31E-05 0.007
2 GO_NEGATIVE_REGULATION_OF_CELLULAR_COMPONENT_ORGANIZATION 5.22E-05 0.008
MEmidnightblue Up KEGG 1 KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION 5.26E-05 0.008
2 KEGG_SYSTEMIC_LUPUS_ERYTHEMATOSUS 0.001 0.09
GO-BP 1 GO_PROTEIN_FOLDING 2.29E-21 4.69E-18
2 GO_PROTEIN_REFOLDING 9.27E-12 8.16E-09
MEsteelblue Up KEGG 1 KEGG_CYTOKINE_CYTOKINE_RECEPTOR_INTERACTION 0.001 0.09
2 KEGG_APOPTOSIS 0.002 0.11
GO-BP 1 GO_INFLAMMATORY_RESPONSE 7.44E-06 0.002
2 GO_CELL_DEATH 1.23E-05 0.002
  1. For significant modules, results of the enrichment analysis are specified when comparing C9orf72 expansion carriers to control subjects (C9Plus vs. Control). Each time, the direction of the change (Dir), process or pathway, p-value, and false discovery rate (FDR) are incorporated. Kyoto Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology – Biological Processes (GO-BP) were used. Of note, this table has been generated after adjustment for cell-type-specific markers