Table 3.
Over-represented GO Biological Process terms regarding nervous system and development in miR-140-3p-mediated regulatory network.
| GO BP term ID | GO BP term description | BH adjusted p-value | Gene Ratio | Background Ratio |
|---|---|---|---|---|
| GO:0061029 | eyelid development in camera-type eye | 2.31E-05 | 0.0482 | 0.0008 |
| GO:1990090 | cellular response to nerve growth factor stimulus | 3.64E-05 | 0.0602 | 0.0021 |
| GO:1990089 | response to nerve growth factor | 4.88E-05 | 0.0602 | 0.0023 |
| GO:0048608 | reproductive structure development | 0.00015 | 0.1325 | 0.0244 |
| GO:0061458 | reproductive system development | 0.00016 | 0.1325 | 0.0246 |
| GO:0016049 | cell growth | 0.00048 | 0.1325 | 0.0289 |
| GO:0048732 | gland development | 0.00061 | 0.1205 | 0.0244 |
| GO:0001654 | eye development | 0.00066 | 0.1084 | 0.0197 |
| GO:0051961 | negative regulation of nervous system development | 0.00068 | 0.0964 | 0.0152 |
| GO:0048714 | positive regulation of oligodendrocyte differentiation | 0.00089 | 0.0361 | 0.0009 |
| GO:0008584 | male gonad development | 0.00089 | 0.0723 | 0.0080 |
| GO:0046546 | development of primary male sexual characteristics | 0.00089 | 0.0723 | 0.0080 |
| GO:0008406 | gonad development | 0.0012 | 0.0843 | 0.0125 |
| GO:0030850 | prostate gland development | 0.0012 | 0.0482 | 0.0028 |
| GO:0070997 | neuron death | 0.0012 | 0.0964 | 0.0169 |
| GO:0043010 | camera-type eye development | 0.0013 | 0.0964 | 0.0171 |
| GO:0045137 | development of primary sexual characteristics | 0.0013 | 0.0843 | 0.0128 |
| GO:0001558 | regulation of cell growth | 0.0016 | 0.1084 | 0.0229 |
| GO:0061448 | connective tissue development | 0.0020 | 0.0843 | 0.0139 |
| GO:0030308 | negative regulation of cell growth | 0.0020 | 0.0723 | 0.0098 |
| GO:0007507 | heart development | 0.0021 | 0.1205 | 0.0296 |
| GO:0050768 | negative regulation of neurogenesis | 0.0021 | 0.0843 | 0.0141 |
| GO:1901215 | negative regulation of neuron death | 0.0024 | 0.0723 | 0.0102 |
| GO:2000171 | negative regulation of dendrite development | 0.0028 | 0.0361 | 0.0015 |
| GO:0045665 | negative regulation of neuron differentiation | 0.0033 | 0.0723 | 0.0111 |
| GO:0061196 | fungiform papilla development | 0.0035 | 0.0241 | 0.0004 |
| GO:0001893 | maternal placenta development | 0.0037 | 0.0361 | 0.0017 |
| GO:0048713 | regulation of oligodendrocyte differentiation | 0.0037 | 0.0361 | 0.0017 |
| GO:0010721 | negative regulation of cell development | 0.0037 | 0.0843 | 0.0163 |
| GO:0060541 | respiratory system development | 0.0041 | 0.0723 | 0.0118 |
| GO:0048709 | oligodendrocyte differentiation | 0.0053 | 0.0482 | 0.0047 |
| GO:0035265 | organ growth | 0.0054 | 0.0602 | 0.0084 |
| GO:0060534 | trachea cartilage development | 0.0054 | 0.0241 | 0.0005 |
| GO:0007423 | sensory organ development | 0.0063 | 0.1084 | 0.0298 |
| GO:0045926 | negative regulation of growth | 0.0069 | 0.0723 | 0.0136 |
| GO:0060433 | bronchus development | 0.0088 | 0.0241 | 0.0007 |
| GO:0060525 | prostate glandular acinus development | 0.0088 | 0.0241 | 0.0007 |
| GO:1901214 | regulation of neuron death | 0.0098 | 0.0723 | 0.0150 |
| GO:0060736 | prostate gland growth | 0.0098 | 0.0241 | 0.0007 |
| GO:0060742 | epithelial cell differentiation involved in prostate gland development | 0.0098 | 0.0241 | 0.0007 |
| GO:0030323 | respiratory tube development | 0.011 | 0.0602 | 0.0104 |
| GO:0060348 | bone development | 0.011 | 0.0602 | 0.0105 |
| GO:0051216 | cartilage development | 0.012 | 0.0602 | 0.0108 |
| GO:0003417 | growth plate cartilage development | 0.012 | 0.0241 | 0.0008 |
| GO:0001501 | skeletal system development | 0.015 | 0.0964 | 0.0290 |
| GO:0035855 | megakaryocyte development | 0.015 | 0.0241 | 0.0010 |
| GO:0071696 | ectodermal placode development | 0.015 | 0.0241 | 0.0010 |
| GO:0048638 | regulation of developmental growth | 0.016 | 0.0723 | 0.0173 |
| GO:0010977 | negative regulation of neuron projection development | 0.016 | 0.0482 | 0.0073 |
| GO:0060749 | mammary gland alveolus development | 0.017 | 0.0241 | 0.0011 |
| GO:0061377 | mammary gland lobule development | 0.017 | 0.0241 | 0.0011 |
| GO:0071560 | cellular response to transforming growth factor beta stimulus | 0.018 | 0.0602 | 0.0124 |
| GO:0035270 | endocrine system development | 0.018 | 0.0482 | 0.0077 |
| GO:0071559 | response to transforming growth factor beta | 0.018 | 0.0602 | 0.0125 |
| GO:0060438 | trachea development | 0.018 | 0.0241 | 0.0011 |
| GO:0061180 | mammary gland epithelium development | 0.018 | 0.0361 | 0.0038 |
| GO:0003416 | endochondral bone growth | 0.020 | 0.0241 | 0.0012 |
| GO:0043586 | tongue development | 0.020 | 0.0241 | 0.0012 |
| GO:0048167 | regulation of synaptic plasticity | 0.021 | 0.0482 | 0.0081 |
| GO:0030325 | adrenal gland development | 0.021 | 0.0241 | 0.0013 |
| GO:0001890 | placenta development | 0.022 | 0.0482 | 0.0083 |
| GO:0035264 | multicellular organism growth | 0.022 | 0.0482 | 0.0083 |
| GO:0060351 | cartilage development involved in endochondral bone morphogenesis | 0.023 | 0.0241 | 0.0013 |
| GO:0098868 | bone growth | 0.023 | 0.0241 | 0.0013 |
| GO:0060292 | long term synaptic depression | 0.024 | 0.0241 | 0.0014 |
| GO:0010720 | positive regulation of cell development | 0.025 | 0.0843 | 0.0262 |
| GO:0007176 | regulation of epidermal growth factor-activated receptor activity | 0.027 | 0.0241 | 0.0015 |
| GO:0030878 | thyroid gland development | 0.027 | 0.0241 | 0.0015 |
| GO:0060537 | muscle tissue development | 0.029 | 0.0723 | 0.0206 |
| GO:0030900 | forebrain development | 0.030 | 0.0723 | 0.0209 |
| GO:0048736 | appendage development | 0.036 | 0.0482 | 0.0101 |
| GO:0060173 | limb development | 0.036 | 0.0482 | 0.0101 |
| GO:0030324 | lung development | 0.037 | 0.0482 | 0.0102 |
| GO:0008585 | female gonad development | 0.037 | 0.0361 | 0.0055 |
| GO:0050769 | positive regulation of neurogenesis | 0.038 | 0.0723 | 0.0225 |
| GO:0045684 | positive regulation of epidermis development | 0.038 | 0.0241 | 0.0019 |
| GO:0060612 | adipose tissue development | 0.038 | 0.0241 | 0.0019 |
| GO:0098751 | bone cell development | 0.038 | 0.0241 | 0.0019 |
| GO:0046545 | development of primary female sexual characteristics | 0.040 | 0.0361 | 0.0057 |
| GO:0048738 | cardiac muscle tissue development | 0.042 | 0.0482 | 0.0108 |
| GO:0021761 | limbic system development | 0.042 | 0.0361 | 0.0058 |
| GO:0031076 | embryonic camera-type eye development | 0.043 | 0.0241 | 0.0021 |
| GO:0016358 | dendrite development | 0.047 | 0.0482 | 0.0113 |
Term database ID, term description, corresponding BH adjusted p-value generated by the hypergeometric test, Gene Ratio, and Background Ratio values are reported for all the GO Biological Process terms regarding nervous system and development. Gene Ratio: the ratio of number of genes of interest that are annotated with a certain term from the database used to perform the analysis to number of genes of interest that are annotated with terms from the same database. Background Ratio: the ratio of number of genes in the genome that are annotated with a certain term from the database used to perform the analysis to number of genome genes that are annotated with terms from the same database. GO, Gene Ontology; BP, Biological Process; BH, Benjamini-Hochberg.