Gene Page:TNXB

Summary?
GeneID 7148
Symbol TNXB
同义词 EDS3|HXBL|TENX|TN-X|TNX|TNXB1|TNXB2|TNXBS|VUR8|XB|XBS
Description tenascin XB
Reference MIM:600985|HGNC:HGNC:11976|Ensembl:ENSG00000168477|HPRD:02993|Vega:OTTHUMG00000031088
Gene type protein-coding
Map location 6p21.3
Pascal p-value 1E-12
Sherlock p-value 0.287
Fetal beta -0.668
DMG 1 (# studies)
eGene Myers' cis & trans
Meta

Gene in Data Sources
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). 7
PMID:cooccur High-throughput literature-search Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Association 综合优势比方法(Sun et al. 2008), association studies 1 Link to SZGene
GSMA_I Genome scan meta-analysis Psr: 0.033
Literature High-throughput literature-search 与精神分裂症Co-occurance关键词:schizophrenia,schizophrenic,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg11493661 6 32016239 TNXB 9.05E-5 -0.463 0.027 DMG:Wockner_2014
cg26997880 6 32055370 TNXB 2.306E-4 -0.414 0.036 DMG:Wockner_2014
cg19071976 6 32026656 TNXB 2.489E-4 -0.717 0.037 DMG:Wockner_2014
cg18417373 6 32077097 TNXB 2.986E-4 -0.382 0.039 DMG:Wockner_2014
cg17001689 6 32055525 TNXB 3.289E-4 -0.592 0.041 DMG:Wockner_2014
cg09114581 6 32077103 TNXB 3.651E-4 -0.402 0.042 DMG:Wockner_2014
cg07481886 6 32014510 TNXB 4.761E-4 -0.303 0.046 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs2502827 chr1 176044216 TNXB 7148 0.1 trans
rs17572651 chr1 218943612 TNXB 7148 0.04 trans
rs16829545 chr2 151977407 TNXB 7148 4.646E-8 trans
rs3845734 chr2 171125572 TNXB 7148 0.03 trans
rs7584986 chr2 184111432 TNXB 7148 1.015E-4 trans
rs2322831 chr3 4799093 TNXB 7148 0.07 trans
rs7635430 chr3 180152035 TNXB 7148 0.16 trans
rs17762315 chr5 76807576 TNXB 7148 0.03 trans
rs7729096 chr5 76835927 TNXB 7148 0.02 trans
rs1368303 chr5 147672388 TNXB 7148 0.03 trans
rs13360496 0 TNXB 7148 0.17 trans
rs11139334 chr9 84209393 TNXB 7148 0.04 trans
rs3765543 chr9 134458323 TNXB 7148 0.07 trans
rs9506602 chr13 21638359 TNXB 7148 0.19 trans
rs17104720 chr14 77127308 TNXB 7148 0.07 trans
rs16955618 chr15 29937543 TNXB 7148 5.952E-18 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
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.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular function GO term Evidence Neuro keywords PubMed ID
GO:0005178 integrin binding ISS -
GO:0005518 collagen binding IEA -
GO:0008201 heparin binding ISS -
Biological process GO term Evidence Neuro keywords PubMed ID
GO:0007160 cell-matrix adhesion IEA -
GO:0007165 signal transduction IEA -
GO:0006641 triacylglycerol metabolic process IEA -
GO:0006631 fatty acid metabolic process IEA -
GO:0006629 lipid metabolic process IEA -
GO:0016337 cell-cell adhesion IEA -
GO:0030036 actin cytoskeleton organization ISS -
GO:0043506 regulation of JNK activity IEA -
GO:0030199 collagen fibril organization IEA -
GO:0048251 elastic fiber assembly IMP 15102077
GO:0032963 collagen metabolic process IMP 15102077
GO:0043206 fibril organization IEA -
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005576 extracellular region IEA -
GO:0005578 proteinaceous extracellular matrix NAS 7686164
GO:0005583 fibrillar collagen IDA 16278880
GO:0005615 extracellular space IEA -
GO:0005622 intracellular IDA 15102077

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG FOCAL ADHESION 201 138 All SZGR 2.0 genes in this pathway
KEGG ECM RECEPTOR INTERACTION 84 53 All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821 933 All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER DN 232 154 All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION KRAS DN 142 95 All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION CDC25 DN 153 100 All SZGR 2.0 genes in this pathway
BERENJENO ROCK SIGNALING NOT VIA RHOA UP 29 21 All SZGR 2.0 genes in this pathway
VANHARANTA UTERINE FIBROID DN 67 45 All SZGR 2.0 genes in this pathway
ROPERO HDAC2 TARGETS 114 71 All SZGR 2.0 genes in this pathway
BERTUCCI INVASIVE CARCINOMA DUCTAL VS LOBULAR DN 46 34 All SZGR 2.0 genes in this pathway
SHEPARD BMYB MORPHOLINO DN 200 112 All SZGR 2.0 genes in this pathway
JECHLINGER EPITHELIAL TO MESENCHYMAL TRANSITION UP 71 51 All SZGR 2.0 genes in this pathway
SHEPARD BMYB TARGETS 74 41 All SZGR 2.0 genes in this pathway
SHEPARD CRUSH AND BURN MUTANT DN 185 111 All SZGR 2.0 genes in this pathway
YAO HOXA10 TARGETS VIA PROGESTERONE UP 79 58 All SZGR 2.0 genes in this pathway
NIELSEN LIPOSARCOMA UP 18 13 All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 3 101 64 All SZGR 2.0 genes in this pathway
TSENG IRS1 TARGETS DN 135 88 All SZGR 2.0 genes in this pathway
ZHONG SECRETOME OF LUNG CANCER AND ENDOTHELIUM 66 47 All SZGR 2.0 genes in this pathway
ZHONG SECRETOME OF LUNG CANCER AND FIBROBLAST 132 93 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER NORMAL LIKE UP 476 285 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260 174 All SZGR 2.0 genes in this pathway
CHANG CORE SERUM RESPONSE DN 209 137 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS DN 435 289 All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3 UNMETHYLATED 536 296 All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K27ME3 269 159 All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G3 DN 51 32 All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3 590 403 All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 1 68 50 All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 2 86 50 All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745 475 All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS DN 784 464 All SZGR 2.0 genes in this pathway
NABA ECM GLYCOPROTEINS 196 99 All SZGR 2.0 genes in this pathway
NABA CORE MATRISOME 275 148 All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028 559 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-148/152 41 47 1A hsa-miR-148a UCAGUGCACUACAGAACUUUGU
hsa-miR-152brain UCAGUGCAUGACAGAACUUGGG
hsa-miR-148b UCAGUGCAUCACAGAACUUUGU
miR-149 66 72 m8 hsa-miR-149brain UCUGGCUCCGUGUCUUCACUCC
miR-30-5p 132 139 1A,m8 hsa-miR-30a-5p UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain UGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZ UGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA
miR-423 37 43 1A hsa-miR-423 AGCUCGGUCUGAGGCCCCUCAG