Gene Page: ZCCHC11
Summary ?
| GeneID | 23318 |
| Symbol | ZCCHC11 |
| Synonyms | PAPD3|TUT4 |
| Description | zinc finger CCHC-type containing 11 |
| Reference | MIM:613692|HGNC:HGNC:28981|Ensembl:ENSG00000134744|HPRD:15700|Vega:OTTHUMG00000008200 |
| Gene type | protein-coding |
| Map location | 1p32.3 |
| Pascal p-value | 0.12 |
| Sherlock p-value | 0.27 |
| Fetal beta | 1.347 |
| DMG | 1 (# studies) |
| eGene | Caudate basal ganglia Cerebellar Hemisphere Cerebellum Cortex Hippocampus Hypothalamus Nucleus accumbens basal ganglia |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:Jaffe_2016 | Genome-wide DNA methylation analysis | This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. | 1 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg07347137 | 1 | 53019316 | ZCCHC11 | 9.68E-9 | -0.013 | 4.28E-6 | DMG:Jaffe_2016 |
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 |
| CARHSP1 | 0.93 | 0.89 |
| AAAS | 0.93 | 0.77 |
| DBN1 | 0.93 | 0.75 |
| CD276 | 0.92 | 0.80 |
| IMPDH2 | 0.92 | 0.76 |
| SMARCB1 | 0.92 | 0.72 |
| SLC25A1 | 0.91 | 0.88 |
| C14orf93 | 0.91 | 0.83 |
| WRAP53 | 0.91 | 0.74 |
| MARCKSL1 | 0.91 | 0.87 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| C5orf53 | -0.67 | -0.74 |
| FBXO2 | -0.67 | -0.66 |
| HLA-F | -0.66 | -0.65 |
| ALDOC | -0.65 | -0.65 |
| AIFM3 | -0.65 | -0.58 |
| LDHD | -0.65 | -0.65 |
| PTH1R | -0.64 | -0.60 |
| CA4 | -0.64 | -0.77 |
| CCNI2 | -0.63 | -0.79 |
| SLC16A11 | -0.62 | -0.57 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| LIU SOX4 TARGETS UP | 137 | 94 | All SZGR 2.0 genes in this pathway |
| TAKEDA TARGETS OF NUP98 HOXA9 FUSION 16D DN | 143 | 83 | All SZGR 2.0 genes in this pathway |
| LASTOWSKA NEUROBLASTOMA COPY NUMBER DN | 800 | 473 | All SZGR 2.0 genes in this pathway |
| DACOSTA UV RESPONSE VIA ERCC3 DN | 855 | 609 | All SZGR 2.0 genes in this pathway |
| DACOSTA UV RESPONSE VIA ERCC3 COMMON DN | 483 | 336 | All SZGR 2.0 genes in this pathway |
| DELASERNA MYOD TARGETS DN | 57 | 42 | All SZGR 2.0 genes in this pathway |
| HEDENFALK BREAST CANCER BRCA1 VS BRCA2 | 163 | 113 | All SZGR 2.0 genes in this pathway |
| DAZARD RESPONSE TO UV NHEK DN | 318 | 220 | All SZGR 2.0 genes in this pathway |
| DAZARD UV RESPONSE CLUSTER G6 | 153 | 112 | All SZGR 2.0 genes in this pathway |
| TAYLOR METHYLATED IN ACUTE LYMPHOBLASTIC LEUKEMIA | 77 | 52 | All SZGR 2.0 genes in this pathway |
| COLINA TARGETS OF 4EBP1 AND 4EBP2 | 356 | 214 | All SZGR 2.0 genes in this pathway |
| JISON SICKLE CELL DISEASE DN | 181 | 97 | All SZGR 2.0 genes in this pathway |
| KOINUMA TARGETS OF SMAD2 OR SMAD3 | 824 | 528 | All SZGR 2.0 genes in this pathway |
| PHONG TNF RESPONSE NOT VIA P38 | 337 | 236 | All SZGR 2.0 genes in this pathway |