Gene Page: TUBB3
Summary ?
| GeneID | 10381 |
| Symbol | TUBB3 |
| Synonyms | CDCBM|CDCBM1|CFEOM3|CFEOM3A|FEOM3|TUBB4|beta-4 |
| Description | tubulin beta 3 class III |
| Reference | MIM:602661|HGNC:HGNC:20772|Ensembl:ENSG00000258947|HPRD:04044|Vega:OTTHUMG00000138985 |
| Gene type | protein-coding |
| Map location | 16q24.3 |
| Pascal p-value | 0.098 |
| Fetal beta | 1.706 |
| DMG | 1 (# studies) |
| Support | STRUCTURAL PLASTICITY G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS CompositeSet Darnell FMRP targets |
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). | 1 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg26577993 | 16 | 89993032 | TUBB3 | 3.57E-4 | -0.207 | 0.042 | DMG:Wockner_2014 |
Section II. Transcriptome annotation
General gene expression (GTEx)
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.
Top co-expressed genes in brain regions
| Top 10 positively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| NRBP1 | 0.93 | 0.93 |
| HDAC3 | 0.91 | 0.92 |
| SAP30BP | 0.91 | 0.92 |
| NGDN | 0.91 | 0.91 |
| RNPS1 | 0.91 | 0.91 |
| KAT5 | 0.91 | 0.90 |
| VPS33B | 0.91 | 0.90 |
| PRCC | 0.90 | 0.90 |
| EIF2B5 | 0.90 | 0.90 |
| WDR46 | 0.90 | 0.90 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| AF347015.31 | -0.86 | -0.86 |
| MT-CO2 | -0.86 | -0.86 |
| AF347015.27 | -0.85 | -0.86 |
| AF347015.8 | -0.84 | -0.86 |
| AF347015.33 | -0.84 | -0.85 |
| MT-CYB | -0.84 | -0.85 |
| AF347015.2 | -0.83 | -0.87 |
| AF347015.15 | -0.82 | -0.85 |
| AF347015.21 | -0.79 | -0.84 |
| AF347015.26 | -0.79 | -0.84 |
Section IV. Protein-protein interaction annotation
| Interactors | Aliases B | Official full name B | Experimental | Source | PubMed ID |
|---|---|---|---|---|---|
| ARHGEF7 | BETA-PIX | COOL1 | DKFZp686C12170 | DKFZp761K1021 | KIAA0142 | KIAA0412 | Nbla10314 | P50 | P50BP | P85 | P85COOL1 | P85SPR | PAK3 | PIXB | Rho guanine nucleotide exchange factor (GEF) 7 | Two-hybrid | BioGRID | 16169070 |
| BAT1 | D6S81E | DDX39B | UAP56 | HLA-B associated transcript 1 | Two-hybrid | BioGRID | 16169070 |
| C14orf147 | MGC24447 | chromosome 14 open reading frame 147 | Two-hybrid | BioGRID | 16169070 |
| EEF1G | EF1G | GIG35 | eukaryotic translation elongation factor 1 gamma | Two-hybrid | BioGRID | 16169070 |
| GABARAP | FLJ25768 | MGC120154 | MGC120155 | MM46 | GABA(A) receptor-associated protein | Two-hybrid | BioGRID | 16169070 |
| HEXDC | FLJ23825 | hexosaminidase (glycosyl hydrolase family 20, catalytic domain) containing | Two-hybrid | BioGRID | 16169070 |
| INSM1 | IA-1 | IA1 | insulinoma-associated 1 | Two-hybrid | BioGRID | 16169070 |
| KHDRBS1 | FLJ34027 | Sam68 | p62 | KH domain containing, RNA binding, signal transduction associated 1 | Two-hybrid | BioGRID | 16169070 |
| KIAA0746 | DKFZp781J1697 | FLJ21629 | FLJ41299 | KIAA0746 protein | Two-hybrid | BioGRID | 16169070 |
| LAPTM4A | HUMORF13 | KIAA0108 | LAPTM4 | MBNT | Mtrp | lysosomal protein transmembrane 4 alpha | Two-hybrid | BioGRID | 16169070 |
| MRPL28 | MAAT1 | MGC8499 | p15 | mitochondrial ribosomal protein L28 | Two-hybrid | BioGRID | 16169070 |
| PHIP | FLJ20705 | FLJ45918 | MGC90216 | WDR11 | ndrp | pleckstrin homology domain interacting protein | Two-hybrid | BioGRID | 16169070 |
| RILPL2 | FLJ30380 | FLJ32372 | MGC7036 | Rab interacting lysosomal protein-like 2 | Two-hybrid | BioGRID | 16169070 |
| ROBO1 | DUTT1 | FLJ21882 | MGC131599 | MGC133277 | SAX3 | roundabout, axon guidance receptor, homolog 1 (Drosophila) | Two-hybrid | BioGRID | 16169070 |
| TF | DKFZp781D0156 | PRO1557 | PRO2086 | transferrin | Two-hybrid | BioGRID | 16169070 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG GAP JUNCTION | 90 | 68 | All SZGR 2.0 genes in this pathway |
| KEGG PATHOGENIC ESCHERICHIA COLI INFECTION | 59 | 36 | All SZGR 2.0 genes in this pathway |
| REACTOME PREFOLDIN MEDIATED TRANSFER OF SUBSTRATE TO CCT TRIC | 28 | 15 | All SZGR 2.0 genes in this pathway |
| REACTOME PROTEIN FOLDING | 53 | 30 | All SZGR 2.0 genes in this pathway |
| REACTOME FORMATION OF TUBULIN FOLDING INTERMEDIATES BY CCT TRIC | 22 | 11 | All SZGR 2.0 genes in this pathway |
| REACTOME POST CHAPERONIN TUBULIN FOLDING PATHWAY | 19 | 10 | All SZGR 2.0 genes in this pathway |
| REACTOME METABOLISM OF PROTEINS | 518 | 242 | All SZGR 2.0 genes in this pathway |
| HOLLMANN APOPTOSIS VIA CD40 UP | 201 | 125 | All SZGR 2.0 genes in this pathway |
| SENGUPTA NASOPHARYNGEAL CARCINOMA DN | 349 | 157 | All SZGR 2.0 genes in this pathway |
| BASAKI YBX1 TARGETS UP | 290 | 177 | All SZGR 2.0 genes in this pathway |
| TONKS TARGETS OF RUNX1 RUNX1T1 FUSION MONOCYTE UP | 204 | 140 | All SZGR 2.0 genes in this pathway |
| DODD NASOPHARYNGEAL CARCINOMA UP | 1821 | 933 | All SZGR 2.0 genes in this pathway |
| ENK UV RESPONSE KERATINOCYTE UP | 530 | 342 | All SZGR 2.0 genes in this pathway |
| GAUSSMANN MLL AF4 FUSION TARGETS E DN | 22 | 12 | All SZGR 2.0 genes in this pathway |
| DACOSTA UV RESPONSE VIA ERCC3 UP | 309 | 199 | All SZGR 2.0 genes in this pathway |
| SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN UP | 479 | 299 | All SZGR 2.0 genes in this pathway |
| LOPEZ MBD TARGETS | 957 | 597 | All SZGR 2.0 genes in this pathway |
| SCHAEFFER PROSTATE DEVELOPMENT 12HR DN | 57 | 45 | All SZGR 2.0 genes in this pathway |
| AMIT EGF RESPONSE 480 HELA | 164 | 118 | All SZGR 2.0 genes in this pathway |
| NIKOLSKY BREAST CANCER 16Q24 AMPLICON | 53 | 38 | All SZGR 2.0 genes in this pathway |
| SMITH TERT TARGETS DN | 87 | 69 | All SZGR 2.0 genes in this pathway |
| BASSO CD40 SIGNALING DN | 68 | 44 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE DN | 1237 | 837 | All SZGR 2.0 genes in this pathway |
| MODY HIPPOCAMPUS NEONATAL | 35 | 25 | All SZGR 2.0 genes in this pathway |
| DAZARD RESPONSE TO UV NHEK UP | 244 | 151 | All SZGR 2.0 genes in this pathway |
| BURTON ADIPOGENESIS 2 | 72 | 52 | All SZGR 2.0 genes in this pathway |
| DAZARD UV RESPONSE CLUSTER G4 | 21 | 15 | All SZGR 2.0 genes in this pathway |
| MCCLUNG CREB1 TARGETS UP | 100 | 72 | All SZGR 2.0 genes in this pathway |
| WELCSH BRCA1 TARGETS UP | 198 | 132 | All SZGR 2.0 genes in this pathway |
| JIANG AGING CEREBRAL CORTEX DN | 54 | 43 | All SZGR 2.0 genes in this pathway |
| KRIGE RESPONSE TO TOSEDOSTAT 6HR DN | 911 | 527 | All SZGR 2.0 genes in this pathway |
| KRIGE RESPONSE TO TOSEDOSTAT 24HR DN | 1011 | 592 | All SZGR 2.0 genes in this pathway |
| TESAR ALK TARGETS EPISC 3D UP | 7 | 7 | All SZGR 2.0 genes in this pathway |
| TESAR ALK TARGETS EPISC 4D UP | 7 | 6 | All SZGR 2.0 genes in this pathway |
| TESAR ALK AND JAK TARGETS MOUSE ES D4 UP | 5 | 5 | All SZGR 2.0 genes in this pathway |
| HELLER HDAC TARGETS SILENCED BY METHYLATION UP | 461 | 298 | All SZGR 2.0 genes in this pathway |
| SARRIO EPITHELIAL MESENCHYMAL TRANSITION UP | 180 | 114 | All SZGR 2.0 genes in this pathway |
| ZHENG GLIOBLASTOMA PLASTICITY UP | 250 | 168 | All SZGR 2.0 genes in this pathway |
| WEST ADRENOCORTICAL TUMOR UP | 294 | 199 | All SZGR 2.0 genes in this pathway |
| QI PLASMACYTOMA UP | 259 | 185 | All SZGR 2.0 genes in this pathway |
| BLUM RESPONSE TO SALIRASIB DN | 342 | 220 | All SZGR 2.0 genes in this pathway |
| ALONSO METASTASIS EMT UP | 36 | 24 | All SZGR 2.0 genes in this pathway |
| ALONSO METASTASIS UP | 198 | 128 | All SZGR 2.0 genes in this pathway |
| HOFFMANN LARGE TO SMALL PRE BII LYMPHOCYTE UP | 163 | 102 | All SZGR 2.0 genes in this pathway |
| LOPEZ MESOTHELIOMA SURVIVAL OVERALL DN | 16 | 8 | All SZGR 2.0 genes in this pathway |
| LOPEZ MESOTHELIOMA SURVIVAL DN | 12 | 6 | All SZGR 2.0 genes in this pathway |
| YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 14 | 143 | 86 | All SZGR 2.0 genes in this pathway |
| WU APOPTOSIS BY CDKN1A VIA TP53 | 55 | 31 | All SZGR 2.0 genes in this pathway |
| MARTENS TRETINOIN RESPONSE DN | 841 | 431 | All SZGR 2.0 genes in this pathway |
| KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP | 756 | 494 | All SZGR 2.0 genes in this pathway |
| KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP | 682 | 440 | All SZGR 2.0 genes in this pathway |
| KIM ALL DISORDERS CALB1 CORR UP | 548 | 370 | All SZGR 2.0 genes in this pathway |
| CHICAS RB1 TARGETS CONFLUENT | 567 | 365 | All SZGR 2.0 genes in this pathway |
| WIERENGA PML INTERACTOME | 42 | 23 | All SZGR 2.0 genes in this pathway |
| VANDESLUIS COMMD1 TARGETS GROUP 3 DN | 39 | 21 | All SZGR 2.0 genes in this pathway |
| KOINUMA TARGETS OF SMAD2 OR SMAD3 | 824 | 528 | All SZGR 2.0 genes in this pathway |
| GOBERT OLIGODENDROCYTE DIFFERENTIATION DN | 1080 | 713 | All SZGR 2.0 genes in this pathway |
| KRIEG HYPOXIA NOT VIA KDM3A | 770 | 480 | All SZGR 2.0 genes in this pathway |
| RAO BOUND BY SALL4 ISOFORM B | 517 | 302 | All SZGR 2.0 genes in this pathway |
| PECE MAMMARY STEM CELL UP | 146 | 75 | All SZGR 2.0 genes in this pathway |