Gene Page:CLIC1
Summary?
| GeneID | 1192 |
| Symbol | CLIC1 |
| Synonyms | G6|NCC27 |
| Description | chloride intracellular channel 1 |
| Reference | MIM:602872|HGNC:HGNC:2062|Ensembl:ENSG00000213719|HPRD:04188|Vega:OTTHUMG00000031103 |
| Gene type | protein-coding |
| Map location | 6p21.3 |
| Pascal p-value | 1E-12 |
| Sherlock p-value | 0.664 |
| Fetal beta | 0.972 |
| DMG | 2 (# studies) |
| eGene | Myers' cis & trans 元 |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:vanEijk_2014 | Genome-wide DNA methylation analysis | This dataset includes 432 differentially methylated CpG sites corresponding to 391 unique transcripts between schizophrenia patients (n=260) and unaffected controls (n=250). | 4 |
| 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). | 4 |
| GSMA_I | Genome scan meta-analysis | Psr: 0.033 | |
| Network | Shortest path distance of core genes in the Human protein-protein interaction network | Contribution to shortest path in PPI network: 0.0044 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
Differentially methylated gene| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg05157492 | 6 | 31698734 | CLIC1;DDAH2 | 5.81E-5 | 0.333 | 0.023 | DMG:Wockner_2014 |
| cg17069739 | 6 | 31703188 | CLIC1 | 5.729E-4 | -0.603 | 0.049 | DMG:Wockner_2014 |
| cg14700707 | 6 | 32191840 | CLIC1 | 2.507E-4 | -3.793 | DMG:vanEijk_2014 | |
| cg05973262 | 6 | 32191895 | CLIC1 | 5.98E-5 | -4.285 | DMG:vanEijk_2014 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs2495622 | chrX | 117852991 | CLIC1 | 1192 | 0.19 | trans | ||
| rs2254586 | chrX | 117855503 | CLIC1 | 1192 | 0.16 | trans | ||
| rs2495626 | chrX | 117858917 | CLIC1 | 1192 | 0.19 | 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
死神:胎儿(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 |
| ACD | 0.91 | 0.89 |
| TOR2A | 0.89 | 0.89 |
| ADPRHL2 | 0.89 | 0.87 |
| C7orf27 | 0.89 | 0.91 |
| MOSPD3 | 0.88 | 0.86 |
| PTOV1 | 0.88 | 0.88 |
| DULLARD | 0.87 | 0.88 |
| LMBR1L | 0.87 | 0.87 |
| MFSD10 | 0.87 | 0.88 |
| MIIP | 0.87 | 0.88 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| AF347015.27 | -0.67 | -0.79 |
| AF347015.31 | -0.65 | -0.76 |
| MT-CO2 | -0.65 | -0.77 |
| AF347015.33 | -0.64 | -0.75 |
| AF347015.8 | -0.64 | -0.78 |
| MT-CYB | -0.63 | -0.76 |
| C5orf53 | -0.62 | -0.66 |
| AF347015.15 | -0.61 | -0.75 |
| AF347015.2 | -0.58 | -0.75 |
| AF347015.26 | -0.57 | -0.75 |
Section III. Gene Ontology annotation
| Molecular function | 去的术语 | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0005515 | protein binding | 新闻学会 | 14667819 | |
| GO:0005244 | voltage-gated ion channel activity | IEA | - | |
| GO:0005247 | voltage-gated chloride channel activity | IEA | - | |
| GO:0031404 | chloride ion binding | IEA | - | |
| Biological process | 去的术语 | Evidence | Neuro keywords | PubMed ID |
| GO:0007165 | signal transduction | TAS | 16130169 | |
| GO:0006821 | chloride transport | IDA | 9139710 | |
| GO:0006811 | ion transport | IEA | - | |
| Cellular component | 去的术语 | Evidence | Neuro keywords | PubMed ID |
| GO:0005624 | membrane fraction | IDA | 10793131 | |
| GO:0005625 | soluble fraction | IDA | 10793131 | |
| GO:0005634 | nucleus | TAS | 16130169 | |
| GO:0005737 | cytoplasm | IDA | 10793131 | |
| GO:0005903 | brush border | TAS | 10793131 | |
| GO:0005886 | plasma membrane | IEA | - | |
| GO:0031965 | nuclear membrane | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| MCBRYAN PUBERTAL TGFB1 TARGETS UP | 169 | 127 | All SZGR 2.0 genes in this pathway |
| GRUETZMANN PANCREATIC CANCER UP | 358 | 245 | All SZGR 2.0 genes in this pathway |
| PASQUALUCCI LYMPHOMA BY GC STAGE DN | 165 | 104 | All SZGR 2.0 genes in this pathway |
| BENPORATH NANOG TARGETS | 988 | 594 | All SZGR 2.0 genes in this pathway |
| TARTE PLASMA CELL VS PLASMABLAST DN | 309 | 206 | All SZGR 2.0 genes in this pathway |
| PENG GLUTAMINE DEPRIVATION DN | 337 | 230 | All SZGR 2.0 genes in this pathway |
| REN ALVEOLAR RHABDOMYOSARCOMA DN | 408 | 274 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE INCIPIENT UP | 390 | 242 | All SZGR 2.0 genes in this pathway |
| YAMAZAKI TCEB3 TARGETS UP | 175 | 116 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE UP | 1691 | 1088 | All SZGR 2.0 genes in this pathway |
| RODWELL AGING KIDNEY UP | 487 | 303 | All SZGR 2.0 genes in this pathway |
| ZHOU TNF SIGNALING 30MIN | 54 | 36 | All SZGR 2.0 genes in this pathway |
| MONNIER POSTRADIATION TUMOR ESCAPE DN | 373 | 196 | All SZGR 2.0 genes in this pathway |
| CREIGHTON ENDOCRINE THERAPY RESISTANCE 5 | 482 | 296 | All SZGR 2.0 genes in this pathway |
| MARSON BOUND BY FOXP3 STIMULATED | 1022 | 619 | All SZGR 2.0 genes in this pathway |
| MARSON BOUND BY E2F4 UNSTIMULATED | 728 | 415 | All SZGR 2.0 genes in this pathway |
| ACEVEDO LIVER CANCER WITH H3K9ME3 UP | 141 | 75 | All SZGR 2.0 genes in this pathway |
| BONOME OVARIAN CANCER SURVIVAL OPTIMAL DEBULKING | 246 | 152 | All SZGR 2.0 genes in this pathway |
| GRADE METASTASIS DN | 45 | 31 | All SZGR 2.0 genes in this pathway |
| GRADE COLON CANCER UP | 871 | 505 | All SZGR 2.0 genes in this pathway |
| LEE LIVER CANCER SURVIVAL DN | 175 | 103 | All SZGR 2.0 genes in this pathway |
| NUTT GBM VS AO GLIOMA UP | 46 | 34 | All SZGR 2.0 genes in this pathway |
| CHEN METABOLIC SYNDROM NETWORK | 1210 | 725 | All SZGR 2.0 genes in this pathway |
| HSIAO HOUSEKEEPING GENES | 389 | 245 | All SZGR 2.0 genes in this pathway |
| MILI PSEUDOPODIA CHEMOTAXIS DN | 457 | 302 | All SZGR 2.0 genes in this pathway |
| JISON SICKLE CELL DISEASE UP | 181 | 106 | All SZGR 2.0 genes in this pathway |
| BOYAULT LIVER CANCER SUBCLASS G3 UP | 188 | 121 | All SZGR 2.0 genes in this pathway |
| SYED ESTRADIOL RESPONSE | 19 | 15 | All SZGR 2.0 genes in this pathway |
| CAIRO HEPATOBLASTOMA UP | 207 | 143 | All SZGR 2.0 genes in this pathway |
| CAIRO HEPATOBLASTOMA CLASSES UP | 605 | 377 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN ES ICP WITH H3K4ME3 | 718 | 401 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN NPC ICP WITH H3K4ME3 | 445 | 257 | All SZGR 2.0 genes in this pathway |
| VERHAAK GLIOBLASTOMA MESENCHYMAL | 216 | 130 | All SZGR 2.0 genes in this pathway |
| MIKHAYLOVA OXIDATIVE STRESS RESPONSE VIA VHL UP | 7 | 6 | All SZGR 2.0 genes in this pathway |
| PASINI SUZ12 TARGETS DN | 315 | 215 | All SZGR 2.0 genes in this pathway |
| GOBERT OLIGODENDROCYTE DIFFERENTIATION UP | 570 | 339 | All SZGR 2.0 genes in this pathway |