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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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TissGeneSummary

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TissGeneExp

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TissGene-miRNA

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TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

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TissGeneNet

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TissGeneProg

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TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for CHRM1
check button Gene summary
Basic gene informationGene symbolCHRM1
Gene namecholinergic receptor, muscarinic 1
SynonymsHM1|M1|M1R
CytomapUCSC genome browser: 11q13
Type of geneprotein-coding
RefGenesNM_000738.2,
Descriptionacetylcholine receptor, muscarinic 1muscarinic acetylcholine receptor M1
Modification date20141207
dbXrefs MIM : 118510
HGNC : HGNC
Ensembl : ENSG00000168539
HPRD : 00338
Vega : OTTHUMG00000167765
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CHRM1
BioGPS: 1128
PathwayNCI Pathway Interaction Database: CHRM1
KEGG: CHRM1
REACTOME: CHRM1
Pathway Commons: CHRM1
ContextiHOP: CHRM1
ligand binding site mutation search in PubMed: CHRM1
UCL Cancer Institute: CHRM1
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,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 annotationsProtective 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.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID


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TissGeneExp for CHRM1

check button 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 exp


check button 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 isoform exp


check button 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.
normal gene exp


check button 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)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
KIRC-2.149820307-0.194552251-1.9552680568.69E-164.61E-15
LUAD-1.3838674333.245606705-4.6294741381.76E-323.04E-30
LUSC-1.0626497193.176540477-4.2391901961.11E-232.05E-22
THCA-2.443533301-1.348201098-1.0953322031.36E-151.91E-14
BRCA1.2471788163.030445483-1.7832666674.09E-081.27E-07
KIRP-0.7803692650.527868235-1.30823750.01090.023726019
COAD1.1956694372.494592514-1.2989230770.004230.010355229
KICH2.46861036-0.200813642.6694240.002230.00454244
HNSC-1.6176675940.683413802-2.3010813950.0002880.001134851


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TissGene-miRNA for CHRM1

check button 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 typemiRNA idmiRNA accessionP-val.Coeff.# samples


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TissGeneMut for CHRM1
TissGeneSNV for CHRM1

check button 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.
SNV lollipop
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check button 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)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.R261CSKCM2
p.K57NBRCA1
p.Q459*LGG1
p.V113IUVM1
p.Q341*SKCM1
p.R320QSTAD1
p.W157CLUAD1
p.P329RBRCA1
p.R426WPAAD1
p.Q312RUCEC1
p.R352QSKCM1
p.S126YCESC1
p.S237GSARC1
p.R320WSTAD1
p.Q312RESCA1
p.P456SKIRP1
p.R443HUCEC1
p.A248TSKCM1
p.R430HCOAD1
p.S287YLUAD1
p.P246SSKCM1
p.S237GSTAD1
p.G450DGBM1
p.R443CUCEC1
p.A149VCOAD1
p.P343LSKCM1
p.A68TLUAD1
p.E229KESCA1
p.Q459XLGG1
p.S244TSTAD1
p.R264WLGG1
p.F50CUCEC1
p.P329LUCEC1
p.Q341XSKCM1
p.R426LPRAD1
p.A108TLIHC1
p.R430CUCEC1
p.R210CLIHC1
p.R336QBLCA1
p.R261HBLCA1
p.Y272SSTAD1
p.F355IKIRP1
p.P139LTHYM1


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TissGeneCNV for CHRM1

check button 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)
CNV


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TissGeneFusions for CHRM1

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP
Chimerdb3.0FusionScanBRCATCGA-BH-A201-01ASYTL2-CHRM1CDS-5'UTRchr11:85411557chr11:62678650
Chimerdb3.0TopHat-FusionBRCATCGA-BH-A201-01ASYTL2-CHRM1CDS-5'UTRchr11:85411557chr11:62678649
TCGAfusionPortalPRADABRCATCGA-BH-A201-01ASYTL2-CHRM1CDS-5UTRChr11:85411558Chr11:62678650


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TissGeneNet for CHRM1

check button 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)
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COAD (tumor)COAD (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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HNSC (tumor)HNSC (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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KICH (tumor)KICH (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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KIRC (tumor)KIRC (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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KIRP (tumor)KIRP (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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LIHC (tumor)LIHC (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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LUAD (tumor)LUAD (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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LUSC (tumor)LUSC (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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PRAD (tumor)PRAD (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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STAD (tumor)STAD (normal)
CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (tumor)CHRM1, GPRASP2, ICAM1, GNAI2, GPRASP1, SNX1, PVALB (normal)
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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

check button 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.
survival 1

check button 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.
survival 2

check button 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.
survival 3

check button 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.
survival 4

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TissGeneClin for CHRM1
TissGeneDrug for CHRM1

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status
DB00185CevimelineAgonistSmall moleculeApproved
DB00202SuccinylcholineAgonistSmall moleculeApproved
DB00209TrospiumAntagonistSmall moleculeApproved
DB00215CitalopramBinderSmall moleculeApproved
DB00219OxyphenoniumAntagonistSmall moleculeApproved
DB00245BenzatropineAntagonistSmall moleculeApproved
DB00246ZiprasidoneAntagonistSmall moleculeApproved
DB00280DisopyramideAntagonistSmall moleculeApproved
DB00332Ipratropium bromideAntagonistSmall moleculeApproved
DB00340MetixeneAntagonistSmall moleculeApproved
DB00354BuclizineAntagonistSmall moleculeApproved
DB00363ClozapineAntagonistSmall moleculeApproved
DB00376TrihexyphenidylAntagonistSmall moleculeApproved
DB00383OxyphencyclimineAntagonistSmall moleculeApproved
DB00387ProcyclidineAntagonistSmall moleculeApproved
DB00392EthopropazineAntagonistSmall moleculeApproved
DB00408LoxapineBinderSmall moleculeApproved
DB00424HyoscyamineAntagonistSmall moleculeApproved
DB00434CyproheptadineAntagonistSmall moleculeApproved
DB00462Methylscopolamine bromideAntagonistSmall moleculeApproved
DB00517Anisotropine MethylbromideAntagonistSmall moleculeApproved
DB00622NicardipineAntagonistSmall moleculeApproved
DB00670PirenzepineAntagonistSmall moleculeApproved
DB00725Homatropine MethylbromideAntagonistSmall moleculeApproved
DB00747ScopolamineAntagonistSmall moleculeApproved
DB00771ClidiniumAntagonistSmall moleculeApproved
DB00777PropiomazineAntagonistSmall moleculeApproved
DB00782PropanthelineAntagonistSmall moleculeApproved
DB00785CryptenamineAntagonistSmall moleculeApproved
DB00804DicyclomineAntagonistSmall moleculeApproved
DB00805MinaprineAgonistSmall moleculeApproved
DB00809TropicamideAntagonistSmall moleculeApproved
DB00835BrompheniramineAntagonistSmall moleculeApproved
DB00940MethanthelineAntagonistSmall moleculeApproved
DB00942CycrimineAntagonistSmall moleculeApproved
DB00979CyclopentolateAntagonistSmall moleculeApproved
DB01085PilocarpineAgonistSmall moleculeApproved
DB01148FlavoxateAntagonistSmall moleculeApproved
DB01224QuetiapineAntagonistSmall moleculeApproved
DB01409TiotropiumAntagonistSmall moleculeApproved
DB01591SolifenacinAntagonistSmall moleculeApproved
DB01618MolindoneOther/unknownSmall moleculeApproved
DB04843MepenzolateAntagonistSmall moleculeApproved
DB06702FesoterodineAntagonistSmall moleculeApproved
DB08897AclidiniumAntagonistSmall moleculeApproved
DB09076UmeclidiniumAntagonistSmall moleculeApproved
DB00907CocaineAntagonistSmall moleculeApproved|Illicit
DB00496DarifenacinAntagonistSmall moleculeApproved|Investigational
DB00715ParoxetineAntagonistSmall moleculeApproved|Investigational
DB01036TolterodineAntagonistSmall moleculeApproved|Investigational
DB01062OxybutyninAntagonistSmall moleculeApproved|Investigational
DB01175EscitalopramAntagonistSmall moleculeApproved|Investigational
DB01233MetoclopramideAgonistSmall moleculeApproved|Investigational
DB01238AripiprazoleAntagonistSmall moleculeApproved|Investigational
DB00986GlycopyrroniumAntagonistSmall moleculeApproved|Investigational|Vet_approved
DB00366DoxylamineAntagonistSmall moleculeApproved|Vet_approved
DB00477ChlorpromazineSmall moleculeApproved|Vet_approved
DB00508TriflupromazineAntagonistSmall moleculeApproved|Vet_approved
DB00572AtropineAntagonistSmall moleculeApproved|Vet_approved
DB00875FlupentixolAntagonistSmall moleculeApproved|Withdrawn
DB01231DiphenidolAntagonistSmall moleculeApproved|Withdrawn
DB01239ChlorprothixeneAntagonistSmall moleculeApproved|Withdrawn


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TissGeneDisease for CHRM1

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0036341Schizophrenia6BeFree,LHGDN
umls:C0036572Seizures5CTD_human
umls:C0004096Asthma3BeFree,GAD,LHGDN
umls:C0002395Alzheimer's Disease2BeFree
umls:C0000887Acantholysis1LHGDN
umls:C0001314Acute Disease1GAD
umls:C0001973Alcoholic Intoxication, Chronic1GAD
umls:C0003130Anoxia1LHGDN
umls:C0007786Brain Ischemia1CTD_human
umls:C0009375Colonic Neoplasms1BeFree
umls:C0014544Epilepsy1CTD_human
umls:C0024031Low Back Pain1GAD
umls:C0025261Memory Disorders1CTD_human
umls:C0027092Myopia1GAD
umls:C0030193Pain1GAD
umls:C0030807Pemphigus1LHGDN
umls:C0036396Sciatica1GAD
umls:C0043094Weight Gain1GAD
umls:C0151779Cutaneous Melanoma1BeFree
umls:C0231818Airway constriction1BeFree
umls:C2911647Weight Gain Adverse Event1GAD