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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 PNMT
check button Gene summary
Basic gene informationGene symbolPNMT
Gene namephenylethanolamine N-methyltransferase
SynonymsPENT|PNMTase
CytomapUCSC genome browser: 17q12
Type of geneprotein-coding
RefGenesNM_002686.4,
NR_073461.1,
Descriptionnoradrenaline N-methyltransferasephenylethanolamine N-methylase
Modification date20141207
dbXrefs MIM : 171190
HGNC : HGNC
HPRD : 07176
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PNMT
BioGPS: 5409
PathwayNCI Pathway Interaction Database: PNMT
KEGG: PNMT
REACTOME: PNMT
Pathway Commons: PNMT
ContextiHOP: PNMT
ligand binding site mutation search in PubMed: PNMT
UCL Cancer Institute: PNMT
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesHPA,TiGER
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Adrenal glandEye
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)PCPG,ACCUVM
Reference showing the relevant tissue of PNMT
Description by TissGene annotationsFused withOncogene
Fused withTSGene
* 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 PNMT

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
THCA0.655740995-1.7526115482.4083525424.78E-178.89E-16
PRAD-2.0623905241.302161399-3.3645519231.67E-128.14E-11
KIRP-3.360396293-0.087274418-3.2731218752.71E-134.82E-12
KIRC-3.322183793-0.372935182-2.9492486111.48E-302.94E-29
LUAD-1.5808221550.35989681-1.9407189662.39E-091.20E-08
LUSC-2.157315901-0.04951198-2.1078039222.76E-111.10E-10


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TissGene-miRNA for PNMT

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 PNMT
TissGeneSNV for PNMT

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.T203MSTAD2
p.R145CSTAD1
p.N9SKIRP1
p.R33HLUSC1
p.R145HSTAD1
p.P164HCOAD1
p.A260TSTAD1
p.A181VSTAD1
p.S220LUCEC1
p.L262FSKCM1
p.A149VSTAD1
p.L165PLUAD1
p.P42LSKCM1
p.R245HSTAD1
p.R145CPRAD1
p.R240GCOAD1
p.Q278HLUSC1
p.D199HHNSC1
p.S92GSKCM1


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TissGeneCNV for PNMT

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 PNMT

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
Chimerdb3.0FusionScanCESCTCGA-Q1-A73R-01AERBB2-PNMT5'UTR-CDSchr17:37851434chr17:37825881
Chimerdb3.0FusionScanBRCATCGA-B6-A0I9-01AASTN2-PNMTOut-of-Framechr9:120053604chr17:37825881
Chimerdb3.0FusionScanBRCATCGA-3C-AALI-01AIKZF3-PNMTIn-Framechr17:38020372chr17:37825881
Chimerdb3.0TopHat-FusionCESCTCGA-Q1-A73R-01ATCAP-PNMTOut-of-Framechr17:37821620chr17:37825881
Chimerdb3.0TopHat-FusionBRCATCGA-B6-A0I9-01AASTN2-PNMTOut-of-Framechr9:120053604chr17:37825881
TCGAfusionPortalPRADABRCATCGA-B6-A0I9-01AASTN2-PNMTOut-of-frameChr9:120053605Chr17:37825882


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TissGeneNet for PNMT

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)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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COAD (tumor)COAD (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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HNSC (tumor)HNSC (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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KICH (tumor)KICH (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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KIRC (tumor)KIRC (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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KIRP (tumor)KIRP (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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LIHC (tumor)LIHC (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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LUAD (tumor)LUAD (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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LUSC (tumor)LUSC (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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PRAD (tumor)PRAD (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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STAD (tumor)STAD (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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THCA (tumor)THCA (normal)
PNMT, S100A9, TERF2IP (tumor)PNMT, S100A9, TERF2IP (normal)
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TissGeneProg for PNMT

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 PNMT
TissGeneDrug for PNMT

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status


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TissGeneDisease for PNMT

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0020538Hypertensive disease6BeFree,GAD,LHGDN,RGD
umls:C0031511Pheochromocytoma5BeFree
umls:C0019562Von Hippel-Lindau Syndrome2BeFree
umls:C0025268Multiple Endocrine Neoplasia Type 2a2BeFree
umls:C0085580Essential Hypertension2BeFree
umls:C1263846Attention deficit hyperactivity disorder2GAD
umls:C0002395Alzheimer's Disease1BeFree,GAD
umls:C0006142Malignant neoplasm of breast1BeFree
umls:C0011853Diabetes Mellitus, Experimental1RGD
umls:C0020615Hypoglycemia1RGD
umls:C0022660Kidney Failure, Acute1BeFree,GAD
umls:C0026769Multiple Sclerosis1BeFree,GAD,LHGDN
umls:C0027051Myocardial Infarction1BeFree
umls:C0027819Neuroblastoma1BeFree
umls:C0028754Obesity1BeFree,GAD
umls:C0038454Cerebrovascular accident1BeFree
umls:C0264716Chronic heart failure1BeFree
umls:C0678222Breast Carcinoma1BeFree
umls:C0700095Central neuroblastoma1BeFree
umls:C0856742Post MI1BeFree
umls:C2911645Weight Loss Adverse Event1GAD