Gene Page: CHRNA6
Summary ?
| GeneID | 8973 |
| Symbol | CHRNA6 |
| Synonyms | CHNRA6 |
| Description | cholinergic receptor nicotinic alpha 6 subunit |
| Reference | MIM:606888|HGNC:HGNC:15963|Ensembl:ENSG00000147434|HPRD:06056|Vega:OTTHUMG00000165275 |
| Gene type | protein-coding |
| Map location | 8p11.21 |
| Pascal p-value | 0.039 |
| Fetal beta | -0.286 |
| Support | LIGAND GATED ION SIGNALING |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| 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 |
| GO_Annotation | Mapping neuro-related keywords to Gene Ontology annotations | Hits with neuro-related keywords: 4 |
Section I. Genetics and epigenetics annotation
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 |
| C7 | 0.80 | 0.74 |
| LAMA2 | 0.80 | 0.78 |
| COLEC12 | 0.79 | 0.78 |
| CYP1B1 | 0.78 | 0.77 |
| FOXC1 | 0.76 | 0.78 |
| ABCA9 | 0.76 | 0.80 |
| ASPN | 0.75 | 0.70 |
| ITIH2 | 0.74 | 0.63 |
| COL3A1 | 0.74 | 0.48 |
| ALX4 | 0.73 | 0.56 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| SNHG12 | -0.31 | -0.42 |
| FAM128A | -0.30 | -0.35 |
| RPS21 | -0.30 | -0.49 |
| ATP5E | -0.30 | -0.46 |
| MRPL27 | -0.30 | -0.37 |
| C8orf59 | -0.29 | -0.45 |
| MRPL21 | -0.29 | -0.42 |
| STRA13 | -0.28 | -0.41 |
| BLOC1S1 | -0.28 | -0.33 |
| MRPL52 | -0.28 | -0.42 |
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0015464 | acetylcholine receptor activity | TAS | Neurotransmitter (GO term level: 6) | 8906617 |
| GO:0004889 | nicotinic acetylcholine-activated cation-selective channel activity | TAS | 8906617 | |
| GO:0005216 | ion channel activity | IEA | - | |
| GO:0005230 | extracellular ligand-gated ion channel activity | IEA | - | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0007268 | synaptic transmission | TAS | neuron, Synap, Neurotransmitter (GO term level: 6) | 8906617 |
| GO:0007165 | signal transduction | TAS | 8906617 | |
| GO:0006811 | ion transport | IEA | - | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005892 | nicotinic acetylcholine-gated receptor-channel complex | TAS | Neurotransmitter (GO term level: 9) | 8906617 |
| 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 |
| REACTOME PRESYNAPTIC NICOTINIC ACETYLCHOLINE RECEPTORS | 12 | 10 | All SZGR 2.0 genes in this pathway |
| PIEPOLI LGI1 TARGETS DN | 14 | 6 | All SZGR 2.0 genes in this pathway |
| TAKEDA TARGETS OF NUP98 HOXA9 FUSION 10D UP | 194 | 122 | All SZGR 2.0 genes in this pathway |
| NIKOLSKY BREAST CANCER 8P12 P11 AMPLICON | 57 | 32 | All SZGR 2.0 genes in this pathway |
| BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS | 882 | 572 | All SZGR 2.0 genes in this pathway |
| MOREAUX MULTIPLE MYELOMA BY TACI UP | 412 | 249 | All SZGR 2.0 genes in this pathway |
| IVANOVA HEMATOPOIESIS STEM CELL | 254 | 164 | All SZGR 2.0 genes in this pathway |
| BLALOCK ALZHEIMERS DISEASE UP | 1691 | 1088 | All SZGR 2.0 genes in this pathway |
| YAUCH HEDGEHOG SIGNALING PARACRINE DN | 264 | 159 | All SZGR 2.0 genes in this pathway |
| YOSHIMURA MAPK8 TARGETS UP | 1305 | 895 | All SZGR 2.0 genes in this pathway |
| BRUINS UVC RESPONSE VIA TP53 GROUP D | 280 | 158 | All SZGR 2.0 genes in this pathway |