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Table 6 The top significant changes in GO-BP (A), −CC (B), −MF(C) and KEGG pathway (D) according to differentially expressed genes in LINC00943-ceRNA sub-network

From: Reconstruction of lncRNA-miRNA-mRNA network based on competitive endogenous RNA reveals functional lncRNAs in skin cutaneous melanoma

A
 GO-BP Term Enrichment Score Count % P-Value
 positive regulation of transcription from RNA polymerase II promoter 3.413985 22 12.22 <  0.001
 positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway 2.5522952 4 2.222 0.003
 negative regulation of transcription from RNA polymerase II promoter 2.4555568 16 8.889 0.004
 transcription from RNA polymerase II promoter 2.4471842 13 7.222 0.004
 positive regulation of transcription, DNA-templated 2.4336944 13 7.222 0.004
 apoptotic process 2.1092412 13 7.222 0.008
 negative regulation of translational initiation 2.064083 3 1.667 0.009
 protein import into mitochondrial matrix 1.95711 3 1.667 0.011
 regulation of protein localization 1.8821494 4 2.222 0.013
 response to cytokine 1.8821494 4 2.222 0.013
 cellular response to cytokine stimulus 1.7404426 3 1.667 0.018
 cell morphogenesis 1.6784701 4 2.222 0.021
 positive regulation of mesenchymal cell proliferation 1.6028585 3 1.667 0.025
 intracellular protein transport 1.6019839 7 3.889 0.025
 protein sumoylation 1.5991972 5 2.778 0.025
B
 GO-CC Term Enrichment Score Count % P-Value
 cytosol 4.721026 54 30 <  0.001
 nucleoplasm 3.468485 44 24.44 <  0.001
 nucleus 3.459493 72 40 <  0.001
 cytoplasm 3.448156 70 38.89 <  0.001
 membrane 2.786622 35 19.44 0.002
 microtubule plus-end 1.979181 3 1.667 0.01
 PcG protein complex 1.593489 3 1.667 0.025
 nuclear chromatin 1.476598 6 3.333 0.033
 intracellular ribonucleoprotein complex 1.428852 5 2.778 0.037
 mitochondrial outer membrane 1.3075 5 2.778 0.049
 endoplasmic reticulum membrane 1.253057 14 7.778 0.056
 perinuclear region of cytoplasm 1.207393 11 6.111 0.062
 MLL5-L complex 1.146143 2 1.111 0.071
 mitochondrial inner membrane presequence translocase complex 1.096965 2 1.111 0.08
C
 GO-MF Term Enrichment Score Count % P-Value
 protein binding 3.972219 109 60.56 <  0.001
 protein channel activity 3.7469 4 2.222 <  0.001
 sequence-specific DNA binding 3.320627 15 8.333 <  0.001
 RNA polymerase II core promoter proximal region sequence-specific DNA binding 2.640286 11 6.111 0.002
 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding 2.106865 8 4.444 0.008
 transcription factor activity, sequence-specific DNA binding 1.648871 17 9.444 0.022
 protein kinase activity 1.643895 9 5 0.023
 ATP binding 1.307149 22 12.22 0.049
 vascular endothelial growth factor receptor 2 binding 1.25008 2 1.111 0.056
 transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding 1.197916 4 2.222 0.063
 N6-methyladenosine-containing RNA binding 1.185193 2 1.111 0.065
 P-P-bond-hydrolysis-driven protein transmembrane transporter activity 1.129258 2 1.111 0.074
 poly(A) RNA binding 1.119963 17 9.444 0.076
 chromatin binding 1.08038 8 4.444 0.083
 mRNA 5′-UTR binding 1.080159 2 1.111 0.083
D
 KEGG pathway Enrichment Score Count % P-Value
 Pathways in cancer 2.26453 11 6.111 0.005
 PI3K-Akt signaling pathway 2.145933 10 5.556 0.007
 Oocyte meiosis 1.604046 5 2.778 0.025
 Pancreatic cancer 1.566902 4 2.222 0.027
 Platelet activation 1.386975 5 2.778 0.041
 Insulin signaling pathway 1.307592 5 2.778 0.049
 Proteoglycans in cancer 1.304184 6 3.333 0.05
 Focal adhesion 1.259046 6 3.333 0.055
 Rap1 signaling pathway 1.229991 6 3.333 0.059
 Hippo signaling pathway 1.190921 5 2.778 0.064
 MicroRNAs in cancer 1.179653 7 3.889 0.066
 HIF-1 signaling pathway 1.146419 4 2.222 0.071
 Vibrio cholerae infection 1.020041 3 1.667 0.095