Gene Page:TNFSF11
概括?
| 基因 | 8600 |
| 象征 | TNFSF11 |
| Synonyms | CD254|ODF|OPGL|OPTB2|RANKL|TNLG6B|TRANCE|hRANKL2|sOdf |
| Description | tumor necrosis factor superfamily member 11 |
| Reference | MIM：602642|HGNC：HGNC：11926|Ensembl:ENSG00000120659|HPRD:04031|Vega:OTTHUMG00000016807 |
| Gene type | protein-coding |
| Map location | 13q14 |
| Pascal p-value | 0.718 |
| DMG | 1（＃研究） |
数据源中的基因
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:Wockner_2014 | Genome-wide DNA methylation analysis | This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). | 1 |
| Network | 人蛋白蛋白质相互作用网络中核心基因的最短路径距离 | PPI网络中最短路径的贡献：0.0312 |
第一节遗传学和表观遗传学注释
Differentially methylated gene
Differentially methylated gene| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg24534742 | 13 | 43149281 | TNFSF11 | 2.266E-4 | -0.233 | 0.036 | DMG:Wockner_2014 |
Section II. Transcriptome annotation
General gene expression (GTEx)
Gene expression of temporal and spatial changes (BrainSpan)
脚注：
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.
Top co-expressed genes in brain regions
| Top 10 positively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| DNAJB6 | 0.92 | 0.89 |
| SUMO1 | 0.90 | 0.83 |
| SSB | 0.89 | 0.87 |
| CBX3 | 0.88 | 0.85 |
| DENR | 0.88 | 0.84 |
| DNTTIP2 | 0.88 | 0.84 |
| fip1l1 | 0.87 | 0.87 |
| YWHAE | 0.87 | 0.83 |
| SNX4 | 0.87 | 0.81 |
| 拉拉 | 0.87 | 0.87 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| TREX1 | -0.62 | -0.73 |
| HLA-F | -0.62 | -0.70 |
| FXYD1 | -0.61 | -0.70 |
| TSC22D4 | -0.60 | -0.70 |
| MT-CO2 | -0.60 | -0.68 |
| AC018755.7 | -0.60 | -0.66 |
| AF347015.33 | -0.59 | -0.68 |
| IFI27 | -0.59 | -0.70 |
| AF347015.9 | -0.59 | -0.72 |
| AF347015.31 | -0.58 | -0.68 |
Section III. Gene Ontology annotation
| 分子功能 | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| 去：0004872 | receptor activity | IEA | - | |
| GO:0005125 | cytokine activity | NAS | 9568710 | |
| 去：0005164 | 肿瘤坏死因子受体结合 | NAS | 9312132|9367155 | |
| 生物过程 | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0006955 | immune response | NAS | 9312132 | |
| GO:0007275 | multicellular organismal development | IEA | - | |
| GO:0030154 | cell differentiation | IEA | - | |
| GO:0045780 | positive regulation of bone resorption | IDA | 17241109 | |
| GO:0045672 | 破骨细胞分化的阳性调节 | IDA | 17241109 | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005576 | extracellular region | NAS | 9568710|10708588 | |
| GO:0005615 | extracellular space | IEA | - | |
| GO:0005737 | 细胞质 | IEA | - | |
| GO:0005886 | plasma membrane | IEA | - | |
| GO:0005887 | integral to plasma membrane | NAS | 9312132 |
第四节。蛋白质蛋白相互作用注释
| 互动者 | Aliases B | Official full name B | Experimental | 资源 | PubMed ID |
|---|---|---|---|---|---|
| AKT1 | akt |MGC99656 |PKB |pkb-alpha |Prkba |RAC |Rac-Alpha | v-akt murine thymoma viral oncogene homolog 1 | - | HPRD | 10635328 |
| KHDRBS1 | FLJ34027 |SAM68 |p62 | KH domain containing, RNA binding, signal transduction associated 1 | Biochemical Activity | BioGRID | 10635328 |
| MAPK1 | ERK | ERK2 | ERT1 | MAPK2 | P42MAPK | PRKM1 | PRKM2 | p38 | p40 | p41 | p41mapk | mitogen-activated protein kinase 1 | - | HPRD | 10635328 |
| MAPK3 | ERK1 | HS44KDAP | HUMKER1A |MGC20180 | P44ERK1 | P44MAPK | PRKM3 | mitogen-activated protein kinase 3 | - | HPRD | 10635328 |
| MAPK8 | JNK | JNK1 | JNK1A2 | JNK21B1/2 | PRKM8 | SAPK1 | mitogen-activated protein kinase 8 | - | HPRD | 9396779 |
| NFKB1 | DKFZp686C01211 | EBP-1 | KBF1 | MGC54151 | NF-kappa-B | NFKB-p105 | NFKB-p50 | p105 | nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 | - | HPRD | 10635328 |
| nfkbiA | ikba |Mad-3 |nfkbi | B细胞抑制剂Alpha中Kappa光多肽基因增强子的核因子 | - | HPRD | 10635328 |
| src | ASV |src1 |C-SRC |P60-SRC | v-src sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog (avian) | Affinity Capture-Western | BioGRID | 10635328 |
| TNFRSF11A | CD265 | FEO | LOH18CR1 | ODFR | OFE | OPTB7 | OSTS | PDB2 | RANK | TRANCER | tumor necrosis factor receptor superfamily, member 11a, NFKB activator | - | HPRD | 9367155 |
| TNFRSF11B | MGC29565 |OCIF |OPG |TR1 | 肿瘤坏死因子受体超家族，成员11b | - | HPRD,BioGRID | 9520411 | 12221720 |
| traf6 | MGC：3310 |RNF85 | TNF receptor-associated factor 6 | - | HPRD | 10635328 |
| ZNF675 | FLJ36350 |tbzf |蒂兹 | 锌指蛋白675 | Phenotypic Suppression | BioGRID | 11751921 |
V.途径注释
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG CYTOKINE CYTOKINE RECEPTOR INTERACTION | 267 | 161 | 该途径中的所有SZGR 2.0基因 |
| BIOCARTA RANKL PATHWAY | 14 | 13 | 该途径中的所有SZGR 2.0基因 |
| PID IL6 7 PATHWAY | 47 | 40 | 该途径中的所有SZGR 2.0基因 |
| SENGUPTA NASOPHARYNGEAL CARCINOMA DN | 349 | 157 | 该途径中的所有SZGR 2.0基因 |
| 多德鼻咽癌 | 1821 | 933 | 该途径中的所有SZGR 2.0基因 |
| 洛佩兹MBD目标 | 957 | 597 | 该途径中的所有SZGR 2.0基因 |
| BYSTRYKH造血干细胞QTL Trans | 882 | 572 | 该途径中的所有SZGR 2.0基因 |
| 棕色髓样细胞发育DN | 129 | 86 | 该途径中的所有SZGR 2.0基因 |
| AFFAR YY1 TARGETS DN | 234 | 137 | 该途径中的所有SZGR 2.0基因 |
| BROWNE HCMV INFECTION 48HR DN | 504 | 323 | 该途径中的所有SZGR 2.0基因 |
| SAFFORD T LYMPHOCYTE ANERGY | 87 | 54 | 该途径中的所有SZGR 2.0基因 |
| ZHENG BOUND BY FOXP3 | 491 | 310 | 该途径中的所有SZGR 2.0基因 |
| ZHENG FOXP3 TARGETS IN THYMUS UP | 196 | 137 | 该途径中的所有SZGR 2.0基因 |
| WORSCHECH TUMOR REJECTION UP | 56 | 32 | 该途径中的所有SZGR 2.0基因 |
| QI PLASMACYTOMA UP | 259 | 185 | 该途径中的所有SZGR 2.0基因 |
| MEISSNER BRAIN HCP WITH H3K4ME2 AND H3K27ME3 | 59 | 35 | 该途径中的所有SZGR 2.0基因 |
| MEISSNER NPC HCP WITH H3K4ME2 | 491 | 319 | 该途径中的所有SZGR 2.0基因 |
| MARSON FOXP3 TARGETS DN | 54 | 38 | 该途径中的所有SZGR 2.0基因 |
| BROWNE HCMV INFECTION 30MIN DN | 150 | 99 | 该途径中的所有SZGR 2.0基因 |
| PANGAS TUMOR SUPPRESSION BY SMAD1 AND SMAD5 DN | 157 | 106 | 该途径中的所有SZGR 2.0基因 |
| FUKUSHIMA TNFSF11 TARGETS | 16 | 14 | 该途径中的所有SZGR 2.0基因 |
| CARD MIR302A TARGETS | 77 | 62 | 该途径中的所有SZGR 2.0基因 |
| PURBEY TARGETS OF CTBP1 AND SATB1 DN | 180 | 116 | 该途径中的所有SZGR 2.0基因 |
| LIM MAMMARY LUMINAL MATURE UP | 116 | 65 | 该途径中的所有SZGR 2.0基因 |
| ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY | 1725 | 838 | 该途径中的所有SZGR 2.0基因 |
| NABA SECRETED FACTORS | 344 | 197 | 该途径中的所有SZGR 2.0基因 |
| NABA MATRISOME ASSOCIATED | 753 | 411 | 该途径中的所有SZGR 2.0基因 |
| NABA MATRISOME | 1028 | 559 | 该途径中的所有SZGR 2.0基因 |
Section VI. microRNA annotation
| mirna家族 | Target position | mirna id | miRNA seq | ||
|---|---|---|---|---|---|
| UTR start | UTR end | Match method | |||
| miR-124/506 | 801 | 807 | m8 | hsa-miR-506 | UAAGGCACCCUUCUGAGUAGA |
| hsa-miR-124brain | UAAGGCACGCGGUGAAUGCC | ||||
| miR-17-5p/20/93.mr/106/519.d | 617 | 623 | m8 | hsa-miR-17-5p | caaagugcuuacugcagguagu |
| HSA-MIR-20Abrain | uaaagugcuuauagugcagguag | ||||
| hsa-miR-106a | AAAAGUGCUUACAGUGCAGGUAGC | ||||
| hsa-miR-106bSZ | uaaagugcugacagugcagau | ||||
| hsa-miR-20bSZ | CAAAGUGCUCAUAGUGCAGGUAG | ||||
| HSA-MIR-519D | caaagugccucccuuuagugugu | ||||
| miR-181 | 1049 | 1055 | m8 | HSA-MIR-181Abrain | aacauucaacgcugucggugagu |
| HSA-MIR-181BSZ | AACAUUCAUUGCUGUCGGUGGG | ||||
| HSA-MIR-181Cbrain | AACAUUCAACCUGUCGGUGAGU | ||||
| HSA-MIR-181Dbrain | AACAUUCAUUGUUGUCGGUGGGUU | ||||
| miR-194 | 398 | 404 | 1A | hsa-miR-194 | uguaacagcaacuccauga |
| miR-410 | 463 | 469 | 1A | hsa-miR-410 | aauauaacacagauggcugu |
| hsa-miR-410 | aauauaacacagauggcugu | ||||
| mir-493-5p | 594 | 600 | m8 | hsa-miR-493-5p | UUGUACAUGGUAGGCUUUCAUU |
| miR-543 | 1050 | 1057 | 1A,m8 | hsa-miR-543 | AAACAUUCGCGGUGCACUUCU |