Gene Page:DNMT3A
Summary?
| GeneID | 1788 |
| Symbol | DNMT3A |
| Synonyms | DNMT3A2|M.HsaIIIA|TBRS |
| Description | DNA (cytosine-5-)-methyltransferase 3 alpha |
| Reference | MIM:602769|HGNC:HGNC:2978|Ensembl:ENSG00000119772|HPRD:04141|Vega:OTTHUMG00000094777 |
| Gene type | protein-coding |
| Map location | 2p23 |
| Pascal p-value | 5.006E-5 |
| Fetal beta | 2.302 |
| DMG | 1 (# studies) |
| Support | Chromatin Remodeling Genes |
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). | 3 |
| PMID:cooccur | High-throughput literature-search | Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included. | |
| Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenias | Click to show details |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
Differentially methylated gene| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg13558695 | 2 | 25500125 | DNMT3A | 6.49E-5 | 0.388 | 0.024 | DMG:Wockner_2014 |
| cg27369452 | 2 | 25475583 | DNMT3A | 1.117E-4 | 0.671 | 0.029 | DMG:Wockner_2014 |
| cg23009818 | 2 | 25499764 | DNMT3A | 3.481E-4 | 0.332 | 0.041 | 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 |
| GPX7 | 0.81 | 0.79 |
| CBY1 | 0.80 | 0.77 |
| WDR34 | 0.79 | 0.75 |
| RUVBL1 | 0.79 | 0.78 |
| RP2 | 0.78 | 0.65 |
| MEST | 0.77 | 0.68 |
| SALL2 | 0.76 | 0.69 |
| TSPAN6 | 0.76 | 0.73 |
| NT5DC2 | 0.75 | 0.80 |
| PYCR1 | 0.75 | 0.77 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| HLA-F | -0.57 | -0.74 |
| FBXO2 | -0.55 | -0.74 |
| C5orf53 | -0.55 | -0.69 |
| CA4 | -0.54 | -0.74 |
| PTGDS | -0.54 | -0.77 |
| ALDOC | -0.53 | -0.71 |
| CSRP1 | -0.53 | -0.75 |
| TINAGL1 | -0.53 | -0.70 |
| SPARCL1 | -0.53 | -0.74 |
| CCNI2 | -0.53 | -0.68 |
第四部分,注释蛋白质间交互作用
| Interactors | Aliases B | Official full name B | Experimental | Source | PubMed ID |
|---|---|---|---|---|---|
| CBX1 | CBX | HP1-BETA | HP1Hs-beta | HP1Hsbeta | M31 | MOD1 | p25beta | chromobox同族体1 (HP1βDrosophi同系物la ) | - | HPRD,BioGRID | 12711675 |
| CBX5 | HP1 | HP1A | chromobox homolog 5 (HP1 alpha homolog, Drosophila) | Affinity Capture-Western | BioGRID | 12867029 |
| DNMT1 | AIM | CXXC9 | DNMT | FLJ16293 | MCMT | MGC104992 | DNA (cytosine-5-)-methyltransferase 1 | hDNMT3a interacts with hDNMT1. | BIND | 12145218 |
| DNMT1 | AIM | CXXC9 | DNMT | FLJ16293 | MCMT | MGC104992 | DNA (cytosine-5-)-methyltransferase 1 | - | HPRD,BioGRID | 12145218 |
| DNMT3B | ICF | M.HsaIIIB | DNA (cytosine-5-)-methyltransferase 3 beta | - | HPRD,BioGRID | 12145218 |
| DNMT3L | MGC1090 | DNA (cytosine-5-)-methyltransferase 3-like | - | HPRD,BioGRID | 11934864 |
| DNMT3L | MGC1090 | DNA (cytosine-5-)-methyltransferase 3-like | DNMT3L interacts with Dnmt3a. This interaction was modeled on a demonstrated interaction between human DNMT3L and mouse Dnmt3a. | BIND | 15105426 |
| HDAC1 | DKFZp686H12203 | GON-10 | HD1 | RPD3 | RPD3L1 | histone deacetylase 1 | - | HPRD,BioGRID | 11350943 |
| MYC | bHLHe39 | c-Myc | v-myc myelocytomatosis viral oncogene homolog (avian) | Myc interacts with Dmnt3a. | BIND | 15616584 |
| MYC | bHLHe39 | c-Myc | v-myc myelocytomatosis viral oncogene homolog (avian) | - | HPRD,BioGRID | 15616584 |
| PIAS1 | DDXBP1 | GBP | GU/RH-II | MGC141878 | MGC141879 | ZMIZ3 | protein inhibitor of activated STAT, 1 | - | HPRD,BioGRID | 14752048 |
| PIAS2 | MGC102682 | MIZ1 | PIASX | PIASX-ALPHA | PIASX-BETA | SIZ2 | ZMIZ4 | miz | protein inhibitor of activated STAT, 2 | Affinity Capture-Western Reconstituted Complex Two-hybrid |
BioGRID | 14752048 |
| RARB | HAP | NR1B2 | RRB2 | retinoic acid receptor, beta | DNMT3A interacts with RARB (RAR-beta-2) gene promoter sequences. | BIND | 15688037 |
| RB1 | OSRC | RB | p105-Rb | pRb | pp110 | retinoblastoma 1 | Reconstituted Complex | BioGRID | 11350943 |
| RPS8 | - | ribosomal protein S8 | Reconstituted Complex | BioGRID | 15616584 |
| SUV39H1 | KMT1A | MG44 | SUV39H | suppressor of variegation 3-9 homolog 1 (Drosophila) | - | HPRD,BioGRID | 12711675 |
| UBE2I | C358B7.1 | P18 | UBC9 | ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) | - | HPRD,BioGRID | 14752048 |
| ZBTB17 | MIZ-1 | ZNF151 | ZNF60 | pHZ-67 | zinc finger and BTB domain containing 17 | Affinity Capture-Western | BioGRID | 15616584 |
| ZBTB17 | MIZ-1 | ZNF151 | ZNF60 | pHZ-67 | zinc finger and BTB domain containing 17 | Miz-1 interacts with Dmnt3a. | BIND | 15616584 |
| ZNF238 | C2H2-171 | RP58 | TAZ-1 | ZBTB18 | zinc finger protein 238 | Affinity Capture-Western Reconstituted Complex |
BioGRID | 11350943 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG CYSTEINE AND METHIONINE METABOLISM | 34 | 24 | All SZGR 2.0 genes in this pathway |
| PID MYC REPRESS PATHWAY | 63 | 52 | All SZGR 2.0 genes in this pathway |
| HOLLMANN APOPTOSIS VIA CD40 DN | 267 | 178 | All SZGR 2.0 genes in this pathway |
| GAUSSMANN MLL AF4 FUSION TARGETS C UP | 170 | 114 | All SZGR 2.0 genes in this pathway |
| MCBRYAN PUBERTAL BREAST 5 6WK DN | 137 | 97 | All SZGR 2.0 genes in this pathway |
| RASHI RESPONSE TO IONIZING RADIATION 5 | 147 | 89 | All SZGR 2.0 genes in this pathway |
| PATIL LIVER CANCER | 747 | 453 | All SZGR 2.0 genes in this pathway |
| NUYTTEN EZH2 TARGETS UP | 1037 | 673 | All SZGR 2.0 genes in this pathway |
| RICKMAN TUMOR DIFFERENTIATED WELL VS POORLY UP | 236 | 139 | All SZGR 2.0 genes in this pathway |
| SCHAEFFER PROSTATE DEVELOPMENT 6HR DN | 514 | 330 | All SZGR 2.0 genes in this pathway |
| BENPORATH ES 1 | 379 | 235 | All SZGR 2.0 genes in this pathway |
| BENPORATH ES 2 | 40 | 21 | All SZGR 2.0 genes in this pathway |
| BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS | 882 | 572 | All SZGR 2.0 genes in this pathway |
| LIAN LIPA TARGETS 6M | 74 | 47 | All SZGR 2.0 genes in this pathway |
| GEISS RESPONSE TO DSRNA DN | 16 | 8 | All SZGR 2.0 genes in this pathway |
| IVANOVA HEMATOPOIESIS STEM CELL | 254 | 164 | All SZGR 2.0 genes in this pathway |
| LIAN LIPA TARGETS 3M | 59 | 36 | All SZGR 2.0 genes in this pathway |
| HOFFMANN SMALL PRE BII TO IMMATURE B LYMPHOCYTE DN | 50 | 33 | All SZGR 2.0 genes in this pathway |
| CHEN METABOLIC SYNDROM NETWORK | 1210 | 725 | All SZGR 2.0 genes in this pathway |
| CAIRO HEPATOBLASTOMA CLASSES UP | 605 | 377 | All SZGR 2.0 genes in this pathway |
| KARLSSON TGFB1 TARGETS DN | 207 | 139 | All SZGR 2.0 genes in this pathway |
| KASLER HDAC7 TARGETS 1 UP | 194 | 133 | All SZGR 2.0 genes in this pathway |
| TORCHIA TARGETS OF EWSR1 FLI1 FUSION DN | 321 | 200 | All SZGR 2.0 genes in this pathway |
| GOBERT OLIGODENDROCYTE DIFFERENTIATION DN | 1080 | 713 | All SZGR 2.0 genes in this pathway |
| RAO BOUND BY SALL4 | 227 | 149 | All SZGR 2.0 genes in this pathway |
| ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY | 1725 | 838 | All SZGR 2.0 genes in this pathway |