Gene Page: CHAT
Summary ?
GeneID | 1103 |
Symbol | CHAT |
Synonyms | CHOACTASE|CMS1A|CMS1A2|CMS6 |
Description | choline O-acetyltransferase |
Reference | MIM:118490|HGNC:HGNC:1912|Ensembl:ENSG00000070748|HPRD:07510|Vega:OTTHUMG00000018198 |
Gene type | protein-coding |
Map location | 10q11.2 |
Pascal p-value | 0.51 |
Fetal beta | -1.749 |
Support | NEUROTRANSMITTER METABOLISM |
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. | |
Association | A combined odds ratio method (Sun et al. 2008), association studies | 2 | Link to SZGene |
Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenics,schizotypy,schizophrenias,schizotypal | Click to show details |
GO_Annotation | Mapping neuro-related keywords to Gene Ontology annotations | Hits with neuro-related keywords: 7 |
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 |
FBXO5 | 0.96 | 0.86 |
TTK | 0.95 | 0.87 |
PLK4 | 0.95 | 0.88 |
HELLS | 0.95 | 0.77 |
MELK | 0.95 | 0.82 |
KIF23 | 0.94 | 0.83 |
GINS1 | 0.94 | 0.83 |
BRIP1 | 0.94 | 0.83 |
SMC4 | 0.94 | 0.87 |
CEP55 | 0.94 | 0.80 |
Top 10 negatively co-expressed genes | ||
Gene | Pearson's Correlation | Spearman's Correlation |
HLA-F | -0.51 | -0.78 |
C5orf53 | -0.51 | -0.73 |
PTH1R | -0.50 | -0.74 |
AIFM3 | -0.50 | -0.77 |
FBXO2 | -0.50 | -0.67 |
ALDOC | -0.49 | -0.73 |
AF347015.31 | -0.48 | -0.82 |
AF347015.27 | -0.48 | -0.81 |
CA4 | -0.48 | -0.74 |
TNFSF12 | -0.48 | -0.68 |
Section III. Gene Ontology annotation
Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
---|---|---|---|---|
GO:0004102 | choline O-acetyltransferase activity | IEA | - | |
GO:0016740 | transferase activity | IEA | - | |
GO:0008415 | acyltransferase activity | IEA | - | |
Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0030182 | neuron differentiation | IEA | neuron (GO term level: 8) | - |
GO:0007274 | neuromuscular synaptic transmission | IEA | neuron, Synap (GO term level: 7) | - |
GO:0043179 | rhythmic excitation | IEA | Synap (GO term level: 9) | - |
GO:0042136 | neurotransmitter biosynthetic process | IEA | neuron, axon, Synap, Neurotransmitter (GO term level: 9) | - |
GO:0007529 | establishment of synaptic specificity at neuromuscular junction | IEA | neuron, Synap (GO term level: 11) | - |
GO:0016358 | dendrite development | IEA | neurite, dendrite (GO term level: 11) | - |
GO:0007517 | muscle development | IEA | - | |
GO:0007628 | adult walking behavior | IEA | - | |
GO:0007622 | rhythmic behavior | IEA | - | |
Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0043025 | cell soma | IEA | axon, dendrite (GO term level: 4) | - |
GO:0005634 | nucleus | TAS | 10861222 | |
GO:0005737 | cytoplasm | TAS | 10861222 |
Section V. Pathway annotation
Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
---|---|---|---|
KEGG GLYCEROPHOSPHOLIPID METABOLISM | 77 | 35 | All SZGR 2.0 genes in this pathway |
REACTOME PHOSPHOLIPID METABOLISM | 198 | 112 | All SZGR 2.0 genes in this pathway |
REACTOME SYNTHESIS OF PC | 18 | 9 | All SZGR 2.0 genes in this pathway |
REACTOME GLYCEROPHOSPHOLIPID BIOSYNTHESIS | 82 | 39 | 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 RELEASE CYCLE | 34 | 30 | All SZGR 2.0 genes in this pathway |
REACTOME ACETYLCHOLINE NEUROTRANSMITTER RELEASE CYCLE | 10 | 9 | All SZGR 2.0 genes in this pathway |
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS | 478 | 302 | All SZGR 2.0 genes in this pathway |
KONDO PROSTATE CANCER WITH H3K27ME3 | 196 | 93 | All SZGR 2.0 genes in this pathway |
SHEDDEN LUNG CANCER GOOD SURVIVAL A4 | 196 | 124 | All SZGR 2.0 genes in this pathway |
MEISSNER BRAIN HCP WITH H3K27ME3 | 269 | 159 | All SZGR 2.0 genes in this pathway |
MEISSNER NPC HCP WITH H3K4ME2 AND H3K27ME3 | 349 | 234 | All SZGR 2.0 genes in this pathway |
MIKKELSEN MCV6 HCP WITH H3K27ME3 | 435 | 318 | All SZGR 2.0 genes in this pathway |
MIKKELSEN NPC HCP WITH H3K27ME3 | 341 | 243 | All SZGR 2.0 genes in this pathway |
MIKKELSEN MEF HCP WITH H3K27ME3 | 590 | 403 | All SZGR 2.0 genes in this pathway |
NOUSHMEHR GBM GERMLINE MUTATED | 8 | 5 | All SZGR 2.0 genes in this pathway |