Gene Page:CHRNA9
Summary?
| GeneID | 55584 |
| Symbol | CHRNA9 |
| Synonyms | HSA243342|NACHRA9 |
| Description | cholinergic receptor nicotinic alpha 9 subunit |
| Reference | MIM:605116|HGNC:HGNC:14079|Ensembl:ENSG00000174343|HPRD:16092|Vega:OTTHUMG00000099375 |
| Gene type | protein-coding |
| Map location | 4p14 |
| Pascal p-value | 0.483 |
| Fetal beta | -0.082 |
| eGene | Myers' cis & trans |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:GWASdb | Genome-wide Association Studies | GWASdb records for schizophrenia | |
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| GO_Annotation | Mapping neuro-related keywords to Gene Ontology annotations | Hits with neuro-related keywords: 2 |
Section I. Genetics and epigenetics annotation
eQTL annotation
eQTL annotation| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs2190759 | chr17 | 55794698 | CHRNA9 | 55584 | 0.18 | 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周),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 |
| ITGB4 | 0.71 | 0.58 |
| FAM179A | 0.66 | 0.55 |
| AC103809.1 | 0.66 | 0.60 |
| TXNDC6 | 0.66 | 0.54 |
| AK7 | 0.66 | 0.48 |
| LRRC43 | 0.65 | 0.56 |
| CHST6 | 0.65 | 0.59 |
| DNAH6 | 0.64 | 0.42 |
| AC079354.2 | 0.64 | 0.48 |
| DNAH2 | 0.64 | 0.33 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| EMID1 | -0.37 | -0.48 |
| IER5L | -0.36 | -0.42 |
| CYP26A1 | -0.35 | -0.52 |
| ARL4D | -0.35 | -0.42 |
| MPPED1 | -0.35 | -0.41 |
| MEF2C | -0.35 | -0.37 |
| RPRM | -0.35 | -0.41 |
| B4GALT2 | -0.34 | -0.42 |
| MAFB | -0.34 | -0.36 |
| NFKBIE | -0.34 | -0.41 |
Section III. Gene Ontology annotation
| Molecular function | 去的术语 | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0030594 | neurotransmitter receptor activity | IEA | Neurotransmitter (GO term level: 5) | - |
| GO:0004889 | nicotinic acetylcholine-activated cation-selective channel activity | IEA | - | |
| GO:0005509 | calcium ion binding | IEA | - | |
| GO:0005262 | calcium channel activity | IEA | - | |
| GO:0005216 | ion channel activity | IEA | - | |
| GO:0005230 | extracellular ligand-gated ion channel activity | IEA | - | |
| Biological process | 去的术语 | Evidence | Neuro keywords | PubMed ID |
| GO:0006816 | calcium ion transport | IEA | - | |
| GO:0006811 | ion transport | IEA | - | |
| Cellular component | 去的术语 | Evidence | Neuro keywords | PubMed ID |
| GO:0045211 | postsynaptic membrane | IEA | Synap, Neurotransmitter (GO term level: 5) | - |
| GO:0045202 | synapse | IEA | neuron, Synap, Neurotransmitter, Glial (GO term level: 2) | - |
| GO:0016021 | integral to membrane | IEA | - | |
| GO:0005886 | plasma membrane | IEA | - | |
| GO:0030054 | cell junction | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG NEUROACTIVE LIGAND RECEPTOR INTERACTION | 272 | 195 | All SZGR 2.0 genes in this pathway |
| REACTOME TRANSMISSION ACROSS CHEMICAL SYNAPSES | 186 | 155 | All SZGR 2.0 genes in this pathway |
| REACTOME NEURONAL SYSTEM | 279 | 221 | All SZGR 2.0 genes in this pathway |
| REACTOME NEUROTRANSMITTER RECEPTOR BINDING AND DOWNSTREAM TRANSMISSION IN THE POSTSYNAPTIC CELL | 137 | 110 | All SZGR 2.0 genes in this pathway |
| REACTOME ACETYLCHOLINE BINDING AND DOWNSTREAM EVENTS | 16 | 13 | All SZGR 2.0 genes in this pathway |
| REACTOME HIGHLY CALCIUM PERMEABLE POSTSYNAPTIC NICOTINIC ACETYLCHOLINE RECEPTORS | 13 | 12 | All SZGR 2.0 genes in this pathway |
| SENESE HDAC1 TARGETS UP | 457 | 269 | All SZGR 2.0 genes in this pathway |
| SENESE HDAC1 AND HDAC2 TARGETS UP | 238 | 144 | All SZGR 2.0 genes in this pathway |
| SENESE HDAC3 TARGETS UP | 501 | 327 | All SZGR 2.0 genes in this pathway |
| CLIMENT BREAST CANCER COPY NUMBER DN | 8 | 7 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN ES ICP WITH H3K4ME3 | 718 | 401 | 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 |