Gene Page: HOXC12
Summary ?
| GeneID | 3228 |
| Symbol | HOXC12 |
| Synonyms | HOC3F|HOX3|HOX3F |
| Description | homeobox C12 |
| Reference | MIM:142975|HGNC:HGNC:5124|HPRD:00861| |
| Gene type | protein-coding |
| Map location | 12q13.13 |
| Pascal p-value | 0.465 |
| Fetal beta | -0.229 |
| DMG | 1 (# studies) |
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 |
|---|---|---|---|---|---|---|---|
| cg02072366 | 12 | 54345056 | HOXC12 | 1.57E-10 | -0.037 | 5E-7 | 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 |
| PARP8 | 0.61 | 0.64 |
| WDR41 | 0.61 | 0.60 |
| COPS8 | 0.60 | 0.66 |
| KCND2 | 0.58 | 0.61 |
| NXPH1 | 0.58 | 0.60 |
| SCOC | 0.58 | 0.60 |
| RAP1GDS1 | 0.58 | 0.62 |
| UBE2A | 0.57 | 0.64 |
| AZI2 | 0.56 | 0.62 |
| CTNNB1 | 0.56 | 0.61 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| AF347015.2 | -0.40 | -0.47 |
| AF347015.26 | -0.37 | -0.48 |
| AF347015.8 | -0.37 | -0.45 |
| AF347015.33 | -0.37 | -0.45 |
| GRIN2C | -0.37 | -0.42 |
| MT-CYB | -0.36 | -0.44 |
| AIF1L | -0.36 | -0.40 |
| AF347015.15 | -0.36 | -0.43 |
| MT-CO2 | -0.36 | -0.44 |
| AF347015.27 | -0.35 | -0.43 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| HATADA METHYLATED IN LUNG CANCER UP | 390 | 236 | All SZGR 2.0 genes in this pathway |
| BENPORATH SUZ12 TARGETS | 1038 | 678 | All SZGR 2.0 genes in this pathway |
| BENPORATH EED TARGETS | 1062 | 725 | All SZGR 2.0 genes in this pathway |
| BENPORATH ES WITH H3K27ME3 | 1118 | 744 | All SZGR 2.0 genes in this pathway |
| BENPORATH PRC2 TARGETS | 652 | 441 | All SZGR 2.0 genes in this pathway |
| MEISSNER NPC HCP WITH H3K27ME3 | 79 | 59 | All SZGR 2.0 genes in this pathway |
| MEISSNER BRAIN HCP WITH H3K27ME3 | 269 | 159 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN MCV6 HCP WITH H3K27ME3 | 435 | 318 | All SZGR 2.0 genes in this pathway |