TissGDB

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	TissGeneSummary
	TissGeneExp
	TissGene-miRNA
	TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions
	TissGeneNet
	TissGeneProg
	TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for CHRM1

Gene summary

Basic gene information	Gene symbol	CHRM1
	Gene name	cholinergic receptor, muscarinic 1
	Synonyms	HM1\|M1\|M1R
	Cytomap	UCSC genome browser: 11q13
	Type of gene	protein-coding
	RefGenes	NM_000738.2,
	Description	acetylcholine receptor, muscarinic 1muscarinic acetylcholine receptor M1
	Modification date	20141207
dbXrefs	MIM : 118510
	HGNC : HGNC
	Ensembl : ENSG00000168539
	HPRD : 00338
	Vega : OTTHUMG00000167765
Protein	UniProt: go to UniProt's Cross Reference DB Table
Expression	CleanEX: HS_CHRM1
	BioGPS: 1128
Pathway	NCI Pathway Interaction Database: CHRM1
	KEGG: CHRM1
	REACTOME: CHRM1
	Pathway Commons: CHRM1
Context	iHOP: CHRM1
	ligand binding site mutation search in PubMed: CHRM1
	UCL Cancer Institute: CHRM1
Assigned class in TissGDB*	C
Included tissue-specific gene expression resources	TiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)	BrainProstate
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)	GBM,LGGPRAD
Reference showing the relevant tissue of CHRM1
Description by TissGene annotations	Protective TissGene in RFS Cancer gene

* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez

GO ID

GO term

PubMed ID

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TissGeneExp for CHRM1

Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)

Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)

Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.

Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)

Cancer type	Mean(exp) in tumor	Mean(exp) in matched normal	Log2FC	P-val.	FDR
KIRC	-2.149820307	-0.194552251	-1.955268056	8.69E-16	4.61E-15
LUAD	-1.383867433	3.245606705	-4.629474138	1.76E-32	3.04E-30
LUSC	-1.062649719	3.176540477	-4.239190196	1.11E-23	2.05E-22
THCA	-2.443533301	-1.348201098	-1.095332203	1.36E-15	1.91E-14
BRCA	1.247178816	3.030445483	-1.783266667	4.09E-08	1.27E-07
KIRP	-0.780369265	0.527868235	-1.3082375	0.0109	0.023726019
COAD	1.195669437	2.494592514	-1.298923077	0.00423	0.010355229
KICH	2.46861036	-0.20081364	2.669424	0.00223	0.00454244
HNSC	-1.617667594	0.683413802	-2.301081395	0.000288	0.001134851

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TissGene-miRNA for CHRM1

Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))

Cancer type

miRNA id

miRNA accession

P-val.

Coeff.

# samples

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TissGeneMut for CHRM1

TissGeneSNV for CHRM1

nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
* Click on the image to enlarge it in a new window.

Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)

- nsSNVs sorted by frequency.

AAchange	Cancer type	# samples
p.R261C	SKCM	2
p.K57N	BRCA	1
p.Q459*	LGG	1
p.V113I	UVM	1
p.Q341*	SKCM	1
p.R320Q	STAD	1
p.W157C	LUAD	1
p.P329R	BRCA	1
p.R426W	PAAD	1
p.Q312R	UCEC	1
p.R352Q	SKCM	1
p.S126Y	CESC	1
p.S237G	SARC	1
p.R320W	STAD	1
p.Q312R	ESCA	1
p.P456S	KIRP	1
p.R443H	UCEC	1
p.A248T	SKCM	1
p.R430H	COAD	1
p.S287Y	LUAD	1
p.P246S	SKCM	1
p.S237G	STAD	1
p.G450D	GBM	1
p.R443C	UCEC	1
p.A149V	COAD	1
p.P343L	SKCM	1
p.A68T	LUAD	1
p.E229K	ESCA	1
p.Q459X	LGG	1
p.S244T	STAD	1
p.R264W	LGG	1
p.F50C	UCEC	1
p.P329L	UCEC	1
p.Q341X	SKCM	1
p.R426L	PRAD	1
p.A108T	LIHC	1
p.R430C	UCEC	1
p.R210C	LIHC	1
p.R336Q	BLCA	1
p.R261H	BLCA	1
p.Y272S	STAD	1
p.F355I	KIRP	1
p.P139L	THYM	1

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TissGeneCNV for CHRM1

Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)

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TissGeneFusions for CHRM1

Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)

Database	Src	Cancer type	Sample	Fusion gene	ORF	5'-gene BP	3'-gene BP
Chimerdb3.0	FusionScan	BRCA	TCGA-BH-A201-01A	SYTL2-CHRM1	CDS-5'UTR	chr11:85411557	chr11:62678650
Chimerdb3.0	TopHat-Fusion	BRCA	TCGA-BH-A201-01A	SYTL2-CHRM1	CDS-5'UTR	chr11:85411557	chr11:62678649
TCGAfusionPortal	PRADA	BRCA	TCGA-BH-A201-01A	SYTL2-CHRM1	CDS-5UTR	Chr11:85411558	Chr11:62678650

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TissGeneNet for CHRM1

Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)

BRCA (tumor)	BRCA (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

COAD (tumor)	COAD (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

HNSC (tumor)	HNSC (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

KICH (tumor)	KICH (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

KIRC (tumor)	KIRC (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

KIRP (tumor)	KIRP (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

LIHC (tumor)	LIHC (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

LUAD (tumor)	LUAD (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

LUSC (tumor)	LUSC (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

PRAD (tumor)	PRAD (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

STAD (tumor)	STAD (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

THCA (tumor)	THCA (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)	CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)

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TissGeneProg for CHRM1

Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)
* Click on the image to enlarge it in a new window.

Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)
* Click on the image enlarge it in a new window.

Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)
* Click on the image enlarge it in a new window.

Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)
* Click on the image enlarge it in a new window.

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TissGeneClin for CHRM1

TissGeneDrug for CHRM1

Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)

DrugBank ID	Drug name	Drug activity	Drug type	Drug status
DB00185	Cevimeline	Agonist	Small molecule	Approved
DB00202	Succinylcholine	Agonist	Small molecule	Approved
DB00209	Trospium	Antagonist	Small molecule	Approved
DB00215	Citalopram	Binder	Small molecule	Approved
DB00219	Oxyphenonium	Antagonist	Small molecule	Approved
DB00245	Benzatropine	Antagonist	Small molecule	Approved
DB00246	Ziprasidone	Antagonist	Small molecule	Approved
DB00280	Disopyramide	Antagonist	Small molecule	Approved
DB00332	Ipratropium bromide	Antagonist	Small molecule	Approved
DB00340	Metixene	Antagonist	Small molecule	Approved
DB00354	Buclizine	Antagonist	Small molecule	Approved
DB00363	Clozapine	Antagonist	Small molecule	Approved
DB00376	Trihexyphenidyl	Antagonist	Small molecule	Approved
DB00383	Oxyphencyclimine	Antagonist	Small molecule	Approved
DB00387	Procyclidine	Antagonist	Small molecule	Approved
DB00392	Ethopropazine	Antagonist	Small molecule	Approved
DB00408	Loxapine	Binder	Small molecule	Approved
DB00424	Hyoscyamine	Antagonist	Small molecule	Approved
DB00434	Cyproheptadine	Antagonist	Small molecule	Approved
DB00462	Methylscopolamine bromide	Antagonist	Small molecule	Approved
DB00517	Anisotropine Methylbromide	Antagonist	Small molecule	Approved
DB00622	Nicardipine	Antagonist	Small molecule	Approved
DB00670	Pirenzepine	Antagonist	Small molecule	Approved
DB00725	Homatropine Methylbromide	Antagonist	Small molecule	Approved
DB00747	Scopolamine	Antagonist	Small molecule	Approved
DB00771	Clidinium	Antagonist	Small molecule	Approved
DB00777	Propiomazine	Antagonist	Small molecule	Approved
DB00782	Propantheline	Antagonist	Small molecule	Approved
DB00785	Cryptenamine	Antagonist	Small molecule	Approved
DB00804	Dicyclomine	Antagonist	Small molecule	Approved
DB00805	Minaprine	Agonist	Small molecule	Approved
DB00809	Tropicamide	Antagonist	Small molecule	Approved
DB00835	Brompheniramine	Antagonist	Small molecule	Approved
DB00940	Methantheline	Antagonist	Small molecule	Approved
DB00942	Cycrimine	Antagonist	Small molecule	Approved
DB00979	Cyclopentolate	Antagonist	Small molecule	Approved
DB01085	Pilocarpine	Agonist	Small molecule	Approved
DB01148	Flavoxate	Antagonist	Small molecule	Approved
DB01224	Quetiapine	Antagonist	Small molecule	Approved
DB01409	Tiotropium	Antagonist	Small molecule	Approved
DB01591	Solifenacin	Antagonist	Small molecule	Approved
DB01618	Molindone	Other/unknown	Small molecule	Approved
DB04843	Mepenzolate	Antagonist	Small molecule	Approved
DB06702	Fesoterodine	Antagonist	Small molecule	Approved
DB08897	Aclidinium	Antagonist	Small molecule	Approved
DB09076	Umeclidinium	Antagonist	Small molecule	Approved
DB00907	Cocaine	Antagonist	Small molecule	Approved\|Illicit
DB00496	Darifenacin	Antagonist	Small molecule	Approved\|Investigational
DB00715	Paroxetine	Antagonist	Small molecule	Approved\|Investigational
DB01036	Tolterodine	Antagonist	Small molecule	Approved\|Investigational
DB01062	Oxybutynin	Antagonist	Small molecule	Approved\|Investigational
DB01175	Escitalopram	Antagonist	Small molecule	Approved\|Investigational
DB01233	Metoclopramide	Agonist	Small molecule	Approved\|Investigational
DB01238	Aripiprazole	Antagonist	Small molecule	Approved\|Investigational
DB00986	Glycopyrronium	Antagonist	Small molecule	Approved\|Investigational\|Vet_approved
DB00366	Doxylamine	Antagonist	Small molecule	Approved\|Vet_approved
DB00477	Chlorpromazine		Small molecule	Approved\|Vet_approved
DB00508	Triflupromazine	Antagonist	Small molecule	Approved\|Vet_approved
DB00572	Atropine	Antagonist	Small molecule	Approved\|Vet_approved
DB00875	Flupentixol	Antagonist	Small molecule	Approved\|Withdrawn
DB01231	Diphenidol	Antagonist	Small molecule	Approved\|Withdrawn
DB01239	Chlorprothixene	Antagonist	Small molecule	Approved\|Withdrawn

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TissGeneDisease for CHRM1

Disease information associated with TissGene
(DisGeNet, 2016-06-01)

Disease ID	Disease name	# pubmeds	Source
umls:C0036341	Schizophrenia	6	BeFree,LHGDN
umls:C0036572	Seizures	5	CTD_human
umls:C0004096	Asthma	3	BeFree,GAD,LHGDN
umls:C0002395	Alzheimer's Disease	2	BeFree
umls:C0000887	Acantholysis	1	LHGDN
umls:C0001314	Acute Disease	1	GAD
umls:C0001973	Alcoholic Intoxication, Chronic	1	GAD
umls:C0003130	Anoxia	1	LHGDN
umls:C0007786	Brain Ischemia	1	CTD_human
umls:C0009375	Colonic Neoplasms	1	BeFree
umls:C0014544	Epilepsy	1	CTD_human
umls:C0024031	Low Back Pain	1	GAD
umls:C0025261	Memory Disorders	1	CTD_human
umls:C0027092	Myopia	1	GAD
umls:C0030193	Pain	1	GAD
umls:C0030807	Pemphigus	1	LHGDN
umls:C0036396	Sciatica	1	GAD
umls:C0043094	Weight Gain	1	GAD
umls:C0151779	Cutaneous Melanoma	1	BeFree
umls:C0231818	Airway constriction	1	BeFree
umls:C2911647	Weight Gain Adverse Event	1	GAD