TissGDB
Tissglogo

Home

Download

 Statistics

 Landscape

Help

Contact

Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

bullet point

TissGeneSummary

bullet point

TissGeneExp

bullet point

TissGene-miRNA

bullet point

TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

bullet point

TissGeneNet

bullet point

TissGeneProg

bullet point

TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for PCSK9
check button Gene summary
Basic gene informationGene symbolPCSK9
Gene nameproprotein convertase subtilisin/kexin type 9
SynonymsFH3|HCHOLA3|LDLCQ1|NARC-1|NARC1|PC9
CytomapUCSC genome browser: 1p32.3
Type of geneprotein-coding
RefGenesNM_174936.3,
NR_110451.1,
Descriptionconvertase subtilisin/kexin type 9 preproproteinneural apoptosis regulated convertase 1subtilisin/kexin-like protease PC9
Modification date20141222
dbXrefs MIM : 607786
HGNC : HGNC
Ensembl : ENSG00000169174
HPRD : 07080
Vega : OTTHUMG00000008136
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PCSK9
BioGPS: 255738
PathwayNCI Pathway Interaction Database: PCSK9
KEGG: PCSK9
REACTOME: PCSK9
Pathway Commons: PCSK9
ContextiHOP: PCSK9
ligand binding site mutation search in PubMed: PCSK9
UCL Cancer Institute: PCSK9
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)CervixLiver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)CESCLIHC
Reference showing the relevant tissue of PCSK9
Description by TissGene annotationsHave significant anti-correlated miRNA
* 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
GO:0001920negative regulation of receptor recycling17452316
GO:0002092positive regulation of receptor internalization17328821
GO:0007041lysosomal transport17452316
GO:0010469regulation of receptor activity17328821
GO:0010989negative regulation of low-density lipoprotein particle clearance17328821
GO:0016540protein autoprocessing14622975
GO:0032802low-density lipoprotein particle receptor catabolic process16912035
GO:0001920negative regulation of receptor recycling17452316
GO:0002092positive regulation of receptor internalization17328821
GO:0007041lysosomal transport17452316
GO:0010469regulation of receptor activity17328821
GO:0010989negative regulation of low-density lipoprotein particle clearance17328821
GO:0016540protein autoprocessing14622975
GO:0032802low-density lipoprotein particle receptor catabolic process16912035


Top
TissGeneExp for PCSK9

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
PRAD-2.639536565-1.276753872-1.3627826926.85E-086.70E-07
KIRP-3.442892815-1.306717815-2.1361752.70E-124.11E-11
HNSC5.149886112.1594302962.9904558141.60E-103.16E-09
LUAD1.9279970565.309412573-3.3814155172.08E-162.46E-15
COAD5.647853822.9650807432.6827730772.46E-081.97E-07
KIRC-3.323575453-1.455026842-1.8685486112.63E-161.47E-15
STAD3.8294134351.564910312.2645031250.0004670.002867935
ESCA4.6774157080.1303884354.5470272735.99E-050.002183895


Top
TissGene-miRNA for PCSK9

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
LUADhsa-miR-155-5pMIMAT00006460.011-0.3360


Top
TissGeneMut for PCSK9
TissGeneSNV for PCSK9

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
bullet point


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.A53VPCPG3
p.D169NSKCM2
p.D321NSKCM2
p.E269*UCEC1
p.P288LSKCM1
p.R93CPRAD1
p.G292ESKCM1
p.G316CLUAD1
p.L22FPAAD1
p.D141NUCS1
p.E57KDLBC1
p.A598TUCEC1
p.R680GLUSC1
p.A594TLIHC1
p.A475TLUSC1
p.E144KSKCM1
p.M399VLGG1
p.A396TPAAD1
p.E210ASKCM1
p.A402VGBM1
p.V233LOV1
p.G227DSKCM1
p.G236DHNSC1
p.F418LBLCA1
p.R680LTHYM1
p.T385IUCEC1
p.S666NKIRC1
p.V140AUCEC1
p.P71SSKCM1
p.A522VSKCM1
p.Q256EHNSC1
p.E403KBLCA1
p.E84KSKCM1
p.T162SOV1
p.S401YCOAD1
p.R104HSTAD1
p.G232RSKCM1
p.E195KSKCM1
p.R237QSKCM1
p.A647VSKCM1
p.H139RUCEC1
p.S257LLUAD1
p.H139YESCA1
p.R264KSKCM1
p.E431KBLCA1
p.S329LBLCA1
p.E366KSKCM1
p.P120SSKCM1
p.R167LOV1
p.S91TLUSC1
p.R295GSARC1
p.R303CESCA1
p.D422YUCS1
p.E206KSTAD1
p.L16PSKCM1
p.R469WSTAD1
p.S91TKIRC1
p.A53VBRCA1
p.R165LLUAD1
p.V296IPRAD1
p.R218TBLCA1
p.E620VOV1
p.R96HUCEC1
p.R469WUCEC1
p.P404QOV1
p.S91LKIRC1
p.V79MUCEC1
p.D343YSARC1


Top
TissGeneCNV for PCSK9

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


Top
TissGeneFusions for PCSK9

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


Top
TissGeneNet for PCSK9

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)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
COAD (tumor)COAD (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
HNSC (tumor)HNSC (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
KICH (tumor)KICH (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
KIRC (tumor)KIRC (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
KIRP (tumor)KIRP (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
LIHC (tumor)LIHC (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
LUAD (tumor)LUAD (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
LUSC (tumor)LUSC (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
PRAD (tumor)PRAD (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
STAD (tumor)STAD (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point
THCA (tumor)THCA (normal)
PCSK9, LDLR (tumor)PCSK9, LDLR (normal)
bullet pointbullet point


Top
TissGeneProg for PCSK9

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

Top
TissGeneClin for PCSK9
TissGeneDrug for PCSK9

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status
DB09302AlirocumabInhibitorBiotechApproved


Top
TissGeneDisease for PCSK9

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0020445Hypercholesterolemia, Familial76BeFree,CLINVAR,GAD,LHGDN
umls:C0020443Hypercholesterolemia55BeFree,CTD_human,GAD,LHGDN
umls:C0010068Coronary heart disease43BeFree,GAD,LHGDN
umls:C0745103Hyperlipoproteinemia Type IIa34BeFree
umls:C0010054Coronary Arteriosclerosis28BeFree,GAD
umls:C0007222Cardiovascular Diseases20BeFree,GAD,LHGDN
umls:C0004153Atherosclerosis16BeFree,GAD,LHGDN
umls:C1956346Coronary Artery Disease15BeFree,CTD_human,GAD
umls:C0003850Arteriosclerosis14BeFree
umls:C0242339Dyslipidemias13BeFree,LHGDN
umls:C0027051Myocardial Infarction7BeFree,GAD,LHGDN
umls:C0020597Hypobetalipoproteinemias5BeFree
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent4BeFree,GAD
umls:C0038454Cerebrovascular accident4BeFree,GAD,LHGDN
umls:C1862596Familial hypobetalipoproteinemia4BeFree
umls:C0020473Hyperlipidemia3BeFree
umls:C0027627Neoplasm Metastasis3BeFree
umls:C0948008Ischemic stroke3BeFree
umls:C0948089Acute Coronary Syndrome3BeFree,GAD
umls:C1863551HYPERCHOLESTEROLEMIA, AUTOSOMAL DOMINANT, 33CLINVAR,CTD_human,UNIPROT
umls:C3272363Ischemic Cerebrovascular Accident3BeFree
umls:C0001430Adenoma2BeFree
umls:C0020474Hyperlipidemia, Familial Combined2BeFree
umls:C0023903Liver neoplasms2BeFree
umls:C0025202melanoma2BeFree
umls:C0042373Vascular Diseases2BeFree
umls:C0342880Polygenic hypercholesterolemia2BeFree
umls:C1704417Hyperlipoproteinemia Type IIb2BeFree
umls:C1854107Hyperaldosteronism, Familial, Type II2BeFree
umls:C2239176Liver carcinoma2BeFree
umls:C0000744Abetalipoproteinemia1BeFree
umls:C0008350Cholelithiasis1BeFree
umls:C0020459Hyperinsulinism1BeFree
umls:C0022661Kidney Failure, Chronic1GAD
umls:C0023895Liver diseases1BeFree
umls:C0027404Narcolepsy1GAD
umls:C0027708Nephroblastoma1GWASCAT
umls:C0028754Obesity1BeFree
umls:C0031154Peritonitis1BeFree
umls:C0033847Pseudoxanthoma Elasticum1BeFree
umls:C0043325Xanthomatosis1BeFree
umls:C0085096Peripheral Vascular Diseases1BeFree,GAD
umls:C0151744Myocardial Ischemia1BeFree,GAD
umls:C0271650Impaired glucose tolerance1BeFree
umls:C0302314Xanthoma1BeFree
umls:C0494165Secondary malignant neoplasm of liver1BeFree
umls:C0497327Dementia1GAD
umls:C0497406Overweight1BeFree
umls:C0524910Hepatitis C, Chronic1BeFree
umls:C0577631Carotid Atherosclerosis1BeFree
umls:C0751007Intracranial Atherosclerosis1BeFree
umls:C1096249Aortic calcification1BeFree
umls:C1301700Cardiovascular morbidity1BeFree
umls:C1704436Peripheral Arterial Diseases1BeFree
umls:C1863512HYPERCHOLESTEROLEMIA, AUTOSOMAL RECESSIVE1BeFree
umls:C3665365Arteriosclerotic cardiovascular disease, NOS1BeFree