SZGR2

Summary ?

GeneID	1129
Symbol	CHRM2
Synonyms	HM2
Description	cholinergic receptor muscarinic 2
Reference	MIM:118493\|HGNC:HGNC:1951\|Ensembl:ENSG00000181072\|HPRD:00328\|Vega:OTTHUMG00000155658
Gene type	protein-coding
Map location	7q31-q35
Pascal p-value	0.166
Fetal beta	-0.452
DMG	1 (# studies)
Support	GPCR SIGNALLING

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
ADT:Sun_2012	Systematic Investigation of Antipsychotic Drugs and Their Targets	A total of 382 drug-target associations involving 43 antipsychotic drugs and 49 target genes.
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.	2
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: 2

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg21127286	7	136555154	CHRM2	2.55E-9	-0.017	1.88E-6	DMG:Jaffe_2016
cg24845274	7	136555697	CHRM2	9.93E-8	-0.007	2.2E-5	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
PLA2G15	0.86	0.87
ATP13A2	0.81	0.85
GRIN2D	0.80	0.79
PITPNM1	0.80	0.79
ORAI2	0.80	0.82
GDPD5	0.79	0.86
TMEM163	0.78	0.82
ABCA3	0.78	0.89
DBNDD1	0.78	0.76
AHNAK2	0.77	0.82

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.31	-0.53	-0.68
COPZ2	-0.52	-0.67
AF347015.33	-0.52	-0.66
AC021016.1	-0.51	-0.70
MT-CO2	-0.51	-0.67
AF347015.8	-0.50	-0.66
MT-CYB	-0.50	-0.65
AF347015.2	-0.50	-0.62
AF347015.27	-0.50	-0.66
FXYD1	-0.49	-0.63

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0004872	receptor activity	IEA		-
GO:0004981	muscarinic acetylcholine receptor activity	TAS		9603968
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007399	nervous system development	TAS	neurite (GO term level: 5)	2739737
GO:0007188	G-protein signaling, coupled to cAMP nucleotide second messenger	TAS		8139539
GO:0007207	muscarinic acetylcholine receptor, phospholipase C activating pathway	TAS		2739737
GO:0007213	acetylcholine receptor signaling, muscarinic pathway	IEA		-
GO:0007165	signal transduction	IEA		-
GO:0008016	regulation of heart contraction	TAS		10544184
Cellular component	GO term	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:0005886	plasma membrane	TAS		3443095
GO:0005887	integral to plasma membrane	TAS		3037705
GO:0030054	cell junction	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG CALCIUM SIGNALING PATHWAY	178	134	All SZGR 2.0 genes in this pathway
KEGG NEUROACTIVE LIGAND RECEPTOR INTERACTION	272	195	All SZGR 2.0 genes in this pathway
KEGG REGULATION OF ACTIN CYTOSKELETON	216	144	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY GPCR	920	449	All SZGR 2.0 genes in this pathway
REACTOME CLASS A1 RHODOPSIN LIKE RECEPTORS	305	177	All SZGR 2.0 genes in this pathway
REACTOME AMINE LIGAND BINDING RECEPTORS	38	33	All SZGR 2.0 genes in this pathway
REACTOME GPCR DOWNSTREAM SIGNALING	805	368	All SZGR 2.0 genes in this pathway
REACTOME G ALPHA I SIGNALLING EVENTS	195	114	All SZGR 2.0 genes in this pathway
REACTOME GPCR LIGAND BINDING	408	246	All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS DN	848	527	All SZGR 2.0 genes in this pathway
SHEN SMARCA2 TARGETS DN	357	212	All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 1	419	273	All SZGR 2.0 genes in this pathway
KONDO PROSTATE CANCER WITH H3K27ME3	196	93	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-17-5p/20/93.mr/106/519.d	92	99	1A,m8	hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: CHRM2