Gene Page:HERC2
Summary?
| GeneID | 8924 |
| Symbol | HERC2 |
| Synonyms | D15F37S1|MRT38|SHEP1|jdf2|p528 |
| Description | HECT and RLD domain containing E3 ubiquitin protein ligase 2 |
| Reference | MIM:605837|HGNC:HGNC:4868|Ensembl:ENSG00000128731|HPRD:06905|Vega:OTTHUMG00000129251 |
| Gene type | 蛋白质-coding |
| Map location | 15q13 |
| Pascal p-value | 0.406 |
| Sherlock p-value | 0.215 |
| DEG p-value | DEG:Sanders_2014:DS1_p=0.154:DS1_beta=0.022100:DS2_p=7.15e-01:DS2_beta=0.018:DS2_FDR=8.65e-01 |
| Fetal beta | -0.341 |
| eGene | Myers' cis & trans |
| Support | CompositeSet Darnell FMRP targets Ascano FMRP targets |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CNV:YES | Copy number variation studies | Manual curation | |
| DEG:Sanders_2013 | Microarray | Whole-genome gene expression profiles using microarrays on lymphoblastoid cell lines (LCLs) from 413 cases and 446 controls. | |
| 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,schizophrenias | Click to show details |
| Network | Shortest path distance of core genes in the Human protein-protein interaction network | Contribution to shortest path in PPI network: 0.0114 |
部分即遗传学和表观遗传学注释
eQTL annotation
eQTL annotation| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs4864466 | chr4 | 54403975 | HERC2 | 8924 | 0.2 | trans |
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 |
| CCNT2 | 0.95 | 0.96 |
| ZNF318 | 0.93 | 0.95 |
| OGT | 0.93 | 0.95 |
| C10orf18 | 0.93 | 0.96 |
| BRWD1 | 0.93 | 0.94 |
| MED23 | 0.93 | 0.95 |
| ZNF638 | 0.93 | 0.94 |
| RBM12B | 0.93 | 0.96 |
| ZNF248 | 0.93 | 0.95 |
| KIAA0947 | 0.92 | 0.95 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| FXYD1 | -0.76 | -0.85 |
| AF347015.31 | -0.75 | -0.84 |
| MT-CO2 | -0.74 | -0.85 |
| IFI27 | -0.74 | -0.85 |
| HIGD1B | -0.73 | -0.86 |
| AF347015.33 | -0.71 | -0.79 |
| ENHO | -0.70 | -0.83 |
| S100B | -0.70 | -0.78 |
| TSC22D4 | -0.70 | -0.76 |
| CST3 | -0.70 | -0.83 |
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| 走:0005085 | guanyl-nucleotide交换因素活动 | NAS | 9949213 | |
| 走:0005515 | 蛋白质binding | IEA | - | |
| 走:0005524 | ATP binding | IEA | - | |
| 走:0004672 | 蛋白质kinase activity | IEA | - | |
| 走:0016874 | ligase activity | IEA | - | |
| 走:0016881 | acid-amino acid ligase activity | IEA | - | |
| 走:0020037 | heme binding | IEA | - | |
| 走:0008270 | zinc ion binding | IEA | - | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| 走:0006464 | 蛋白质modification process | IEA | - | |
| 走:0006468 | 蛋白质amino acid phosphorylation | IEA | - | |
| 走:0006511 | ubiquitin-dependent protein catabolic process | IEA | - | |
| 走:0006886 | intracellular protein transport | NAS | 9949213 | |
| 走:0030071 | regulation of mitotic metaphase/anaphase transition | IEA | - | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| 走:0005575 | cellular_component | ND | - | |
| 走:0005622 | intracellular | IEA | - | |
| 走:0005680 | anaphase-promoting complex | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG UBIQUITIN MEDIATED PROTEOLYSIS | 138 | 98 | All SZGR 2.0 genes in this pathway |
| REACTOME IMMUNE SYSTEM | 933 | 616 | All SZGR 2.0 genes in this pathway |
| REACTOME ADAPTIVE IMMUNE SYSTEM | 539 | 350 | All SZGR 2.0 genes in this pathway |
| REACTOME CLASS I MHC MEDIATED ANTIGEN PROCESSING PRESENTATION | 251 | 156 | All SZGR 2.0 genes in this pathway |
| REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION | 212 | 129 | All SZGR 2.0 genes in this pathway |
| ONKEN UVEAL MELANOMA UP | 783 | 507 | All SZGR 2.0 genes in this pathway |
| DAVICIONI MOLECULAR ARMS VS ERMS UP | 332 | 228 | All SZGR 2.0 genes in this pathway |
| ENK UV RESPONSE EPIDERMIS DN | 508 | 354 | All SZGR 2.0 genes in this pathway |
| RASHI RESPONSE TO IONIZING RADIATION 5 | 147 | 89 | All SZGR 2.0 genes in this pathway |
| SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN UP | 479 | 299 | All SZGR 2.0 genes in this pathway |
| GEORGES TARGETS OF MIR192 AND MIR215 | 893 | 528 | All SZGR 2.0 genes in this pathway |
| SHEN SMARCA2 TARGETS UP | 424 | 268 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE DN | 1237 | 837 | All SZGR 2.0 genes in this pathway |
| CREIGHTON ENDOCRINE THERAPY RESISTANCE 2 | 473 | 224 | All SZGR 2.0 genes in this pathway |
| LEE RECENT THYMIC EMIGRANT | 227 | 128 | All SZGR 2.0 genes in this pathway |
| PURBEY TARGETS OF CTBP1 NOT SATB1 DN | 448 | 282 | All SZGR 2.0 genes in this pathway |
| ACEVEDO FGFR1 TARGETS IN PROSTATE CANCER MODEL DN | 308 | 187 | 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-103/107 | 231 | 238 | 1A,m8 | hsa-miR-103brain | AGCAGCAUUGUACAGGGCUAUGA |
| hsa-miR-107brain | AGCAGCAUUGUACAGGGCUAUCA | ||||
| miR-25/32/92/363/367 | 334 | 340 | m8 | hsa-miR-25brain | CAUUGCACUUGUCUCGGUCUGA |
| hsa-miR-32 | UAUUGCACAUUACUAAGUUGC | ||||
| hsa-miR-92 | UAUUGCACUUGUCCCGGCCUG | ||||
| hsa-miR-367 | AAUUGCACUUUAGCAAUGGUGA | ||||
| hsa-miR-92bSZ | UAUUGCACUCGUCCCGGCCUC | ||||
| miR-30-5p | 254 | 260 | m8 | hsa-miR-30a-5p | UGUAAACAUCCUCGACUGGAAG |
| hsa-miR-30cbrain | UGUAAACAUCCUACACUCUCAGC | ||||
| hsa-miR-30dSZ | UGUAAACAUCCCCGACUGGAAG | ||||
| hsa-miR-30bSZ | UGUAAACAUCCUACACUCAGCU | ||||
| hsa-miR-30e-5p | UGUAAACAUCCUUGACUGGA | ||||
| miR-369-3p | 420 | 427 | 1A,m8 | hsa-miR-369-3p | AAUAAUACAUGGUUGAUCUUU |
| miR-374 | 421 | 428 | 1A,m8 | hsa-miR-374 | UUAUAAUACAACCUGAUAAGUG |
| miR-500 | 333 | 339 | 1A | hsa-miR-500 | AUGCACCUGGGCAAGGAUUCUG |
- SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Clickhereto see the list of SZ related miRNAs.
- Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Clickhereto see the list of brain related miRNAs.