Table 2.
Bioinformatic analysis of miR-101-3p target genes. The table reports the 20 most representative terms of pathways and GO analysis of miR-101-3p target genes.
| TOP 20 KEGG Pathways | |||
|---|---|---|---|
| Term | Overlap | p Value | FDR |
| Axon guidance | 26/182 | 1.40 × 10−6 | 3.74 × 10−4 |
| PI3K-Akt signaling pathway | 35/354 | 1.04 × 10−4 | 0.006 |
| Focal adhesion | 23/201 | 1.93 × 10−4 | 0.007 |
| MAPK signaling pathway | 29/294 | 4.08 × 10−4 | 0.014 |
| Ras signaling pathway | 24/232 | 0.001 | 0.019 |
| TGF-β signaling pathway | 13/94 | 0.001 | 0.020 |
| Parathyroid hormone synthesis, secretion and action | 14/106 | 0.001 | 0.020 |
| Dopaminergic synapse | 16/132 | 0.001 | 0.021 |
| GnRH secretion | 10/64 | 0.001 | 0.021 |
| ErbB signaling pathway | 12/85 | 0.001 | 0.021 |
| cAMP signaling pathway | 22/216 | 0.001 | 0.021 |
| Sphingolipid signaling pathway | 14/119 | 0.003 | 0.038 |
| Inositol phosphate metabolism | 10/73 | 0.003 | 0.041 |
| Phosphatidylinositol signaling system | 12/97 | 0.003 | 0.041 |
| Thyroid hormone signaling pathway | 14/121 | 0.003 | 0.041 |
| AGE-RAGE signaling pathway in diabetic complications | 12/100 | 0.004 | 0.044 |
| Cholinergic synapse | 13/113 | 0.004 | 0.044 |
| Endocytosis | 23/252 | 0.004 | 0.044 |
| Signaling pathways regulating pluripotency of stem cells | 15/143 | 0.005 | 0.050 |
| Cellular senescence | 16/156 | 0.005 | 0.050 |
| TOP 20 PANTHER Pathways | |||
| Term | Overlap | p Value | FDR |
| EGF receptor signaling pathway Homo sapiens P00018 | 16/109 | 1.04 × 10−4 | 0.006 |
| Wnt signaling pathway Homo sapiens P00057 | 29/278 | 1.59 × 10−4 | 0.006 |
| FGF signaling pathway Homo sapiens P00021 | 14/99 | 4.09 × 10−4 | 0.007 |
| Integrin signaling pathway Homo sapiens P00034 | 19/156 | 3.07 × 10−4 | 0.007 |
| CCKR signaling map ST Homo sapiens P06959 | 19/165 | 0.001 | 0.009 |
| PI3 kinase pathway Homo sapiens P00048 | 7/42 | 0.005 | 0.046 |
| VEGF signaling pathway Homo sapiens P00056 | 8/54 | 0.005 | 0.047 |
| Alzheimer disease-amyloid secretase pathway Homo sapiens P00003 | 8/56 | 0.006 | 0.052 |
| Ras Pathway Homo sapiens P04393 | 9/69 | 0.007 | 0.053 |
| Alzheimer disease-presenilin pathway Homo sapiens P00004 | 11/99 | 0.011 | 0.064 |
| PDGF signaling pathway Homo sapiens P00047 | 12/112 | 0.010 | 0.064 |
| Oxytocin receptor mediated signaling pathway Homo sapiens P04391 | 6/39 | 0.012 | 0.064 |
| Endothelin signaling pathway Homo sapiens P00019 | 9/75 | 0.012 | 0.064 |
| Apoptosis signaling pathway Homo sapiens P00006 | 10/102 | 0.032 | 0.113 |
| Hypoxia response via HIF activation Homo sapiens P00030 | 4/24 | 0.030 | 0.113 |
| Insulin/IGF pathway-protein kinase B signaling cascade Homo sapiens P00033 | 5/34 | 0.026 | 0.113 |
| 5HT2 type receptor mediated signaling pathway Homo sapiens P04374 | 6/46 | 0.026 | 0.113 |
| T-cell activation Homo sapiens P00053 | 8/73 | 0.029 | 0.113 |
| Interleukin signaling pathway Homo sapiens P00036 | 9/86 | 0.028 | 0.113 |
| Cadherin signaling pathway Homo sapiens P00012 | 13/150 | 0.038 | 0.122 |
| TOP 20 GO Biological Process | |||
| Term | Overlap | p Value | FDR |
| regulation of transcription by RNA polymerase II (GO:0006357) | 209/2206 | 1.27 × 10−20 | 4.68 × 10−17 |
| regulation of transcription, DNA-templated (GO:0006355) | 197/2244 | 8.24 × 10−16 | 7.61 × 10−13 |
| regulation of gene expression (GO:0010468) | 103/1079 | 1.67 × 10−10 | 6.87 × 10−8 |
| protein phosphorylation (GO:0006468) | 58/496 | 1.69 × 10−9 | 4.82 × 10−7 |
| cellular protein modification process (GO:0006464) | 96/1025 | 1.99 × 10−9 | 5.26 × 10−7 |
| epithelial to mesenchymal transition (GO:0001837) | 13/47 | 3.33 × 10−7 | 7.23 × 10−5 |
| negative regulation of transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0090101) | 20/108 | 3.63 × 10−7 | 7.45 × 10−5 |
| mesenchymal cell differentiation (GO:0048762) | 13/51 | 9.34 × 10−7 | 1.73 × 10−4 |
| blood vessel morphogenesis (GO:0048514) | 13/56 | 2.94 × 10−6 | 4.93 × 10−4 |
| chromatin remodeling (GO:0006338) | 18/103 | 3.30 × 10−6 | 0.001 |
| regulation of BMP signaling pathway (GO:0030510) | 15/76 | 4.55 × 10−6 | 0.001 |
| regulation of transforming growth factor β receptor signaling pathway (GO:0017015) | 17/100 | 9.00 × 10−6 | 0.001 |
| negative regulation of cell migration (GO:0030336) | 21/144 | 1.02 × 10−5 | 0.001 |
| regulation of cellular macromolecule biosynthetic process (GO:2000112) | 46/468 | 1.05 × 10−5 | 0.001 |
| regulation of microtubule polymerization (GO:0031113) | 10/40 | 2.04 × 10−5 | 0.003 |
| protein localization to nucleus (GO:0034504) | 17/106 | 1.99 × 10−5 | 0.003 |
| neuron migration (GO:0001764) | 11/50 | 2.92 × 10−5 | 0.003 |
| chromatin organization (GO:0006325) | 20/142 | 2.76 × 10−5 | 0.003 |
| generation of neurons (GO:0048699) | 25/202 | 2.84 × 10−5 | 0.003 |
| axonogenesis (GO:0007409) | 28/240 | 2.89 × 10−5 | 0.003 |
| TOP 20 GO Molecular Function | |||
| Term | Overlap | p Value | FDR |
| protein serine/threonine kinase activity (GO:0004674) | 47/344 | 4.00 × 10−10 | 2.70 × 10−7 |
| sequence-specific double-stranded DNA binding (GO:1990837) | 75/712 | 8.63 × 10−10 | 2.88 × 10−7 |
| RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978) | 105/1149 | 1.28 × 10−9 | 2.88 × 10−7 |
| cis-regulatory region sequence-specific DNA binding (GO:0000987) | 104/1149 | 2.61 × 10−9 | 4.39 × 10−7 |
| RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977) | 117/1359 | 4.57 × 10−9 | 6.15 × 10−7 |
| sequence-specific DNA binding (GO:0043565) | 67/707 | 4.01 × 10−7 | 4.50 × 10−5 |
| transcription regulatory region nucleic acid binding (GO:0001067) | 29/212 | 8.81 × 10−7 | 8.47 × 10−5 |
| nuclear import signal receptor activity (GO:0061608) | 7/16 | 5.96 × 10−6 | 4.71 × 10−4 |
| DNA binding (GO:0003677) | 70/811 | 6.30 × 10−6 | 4.71 × 10−4 |
| transcription cis-regulatory region binding (GO:0000976) | 52/549 | 8.18 × 10−6 | 0.001 |
| DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228) | 36/333 | 1.25 × 10−5 | 0.001 |
| double-stranded DNA binding (GO:0003690) | 58/651 | 1.58 × 10−5 | 0.001 |
| nuclear localization sequence binding (GO:0008139) | 7/24 | 1.27 × 10−4 | 0.007 |
| mRNA binding (GO:0003729) | 28/263 | 1.45 × 10−4 | 0.007 |
| nuclear receptor binding (GO:0016922) | 16/120 | 3.23 × 10−4 | 0.015 |
| DNA-binding transcription repressor activity, RNA polymerase II-specific (GO:0001227) | 26/256 | 0.001 | 0.022 |
| GTPase regulator activity (GO:0030695) | 24/233 | 0.001 | 0.027 |
| adenyl ribonucleotide binding (GO:0032559) | 29/306 | 0.001 | 0.029 |
| histone demethylase activity (H3-K27 specific) (GO:0071558) | 3/5 | 0.001 | 0.041 |
| zinc ion binding (GO:0008270) | 30/336 | 0.002 | 0.054 |