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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 PCSK6
check button Gene summary
Basic gene informationGene symbolPCSK6
Gene nameproprotein convertase subtilisin/kexin type 6
SynonymsPACE4|SPC4
CytomapUCSC genome browser: 15q26.3
Type of geneprotein-coding
RefGenesNM_001291309.1,
NM_002570.4,NM_138319.3,NM_138322.3,NM_138323.2,
NM_138324.2,NM_138325.3,NM_138320.1,NM_138321.1,
Descriptionpaired basic amino acid cleaving enzyme 4paired basic amino acid cleaving system 4subtilisin-like proprotein convertase 4subtilisin/kexin-like protease PACE4
Modification date20141207
dbXrefs MIM : 167405
HGNC : HGNC
Ensembl : ENSG00000140479
HPRD : 01329
Vega : OTTHUMG00000172097
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PCSK6
BioGPS: 5046
PathwayNCI Pathway Interaction Database: PCSK6
KEGG: PCSK6
REACTOME: PCSK6
Pathway Commons: PCSK6
ContextiHOP: PCSK6
ligand binding site mutation search in PubMed: PCSK6
UCL Cancer Institute: PCSK6
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)Liver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)LIHC
Reference showing the relevant tissue of PCSK6
Description by TissGene annotationsCancer gene
Have 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:0009100glycoprotein metabolic process8218226
GO:0016485protein processing8218226
GO:0016486peptide hormone processing9242664
GO:0032902nerve growth factor production8615794
GO:0032940secretion by cell8615794
GO:0009100glycoprotein metabolic process8218226
GO:0016485protein processing8218226
GO:0016486peptide hormone processing9242664
GO:0032902nerve growth factor production8615794
GO:0032940secretion by cell8615794


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TissGeneExp for PCSK6

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
KICH-1.8814334750.635798525-2.5172325.61E-125.65E-11
COAD1.5485792942.79956391-1.2509846157.25E-085.24E-07
THCA-3.448943848-1.181094695-2.2678491534.13E-244.57E-22
PRAD1.882960064-0.2394764752.1224365381.61E-163.01E-14
KIRP-1.9183014750.4251454-2.3434468755.56E-062.43E-05
KIRC3.8188263030.681067973.1377583331.39E-261.93E-25
LIHC4.6123945255.748850525-1.1364563.42E-050.000129843


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TissGene-miRNA for PCSK6

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-9-5pMIMAT00004410.021-0.360


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TissGeneMut for PCSK6
TissGeneSNV for PCSK6

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.E141KSKCM2
p.A343VLUAD1
p.R319QLGG1
p.A482SLUAD1
p.P212LSKCM1
p.E674KLUSC1
p.R236QLUSC1
p.S642YUCEC1
p.R180WLUAD1
p.R552QESCA1
p.G317WBLCA1
p.Q516*UCEC1
p.E491*UCEC1
p.Q334*SKCM1
p.E673*BLCA1
p.R144QSKCM1
p.E775KSKCM1
p.E882*ESCA1
p.K175NCESC1
p.R408CLGG1
p.S419PGBM1
p.S548*BRCA1
p.D808ESKCM1
p.G251RSKCM1
p.C799RSKCM1
p.P318LSTAD1
p.D576NBLCA1
p.Q133*SKCM1
p.T638SUCEC1
p.D873YLUAD1
p.R962HSTAD1
p.R647QHNSC1
p.E598KSKCM1
p.G769EUCEC1
p.D461YLUAD1
p.C411FLUAD1
p.R768HLUAD1
p.V368IUCEC1
p.R248SGBM1
p.E616KHNSC1
p.E586DLUAD1
p.E103GSKCM1
p.E587KBLCA1
p.T602ISKCM1
p.E650QHNSC1
p.A467VGBM1
p.L215PSTAD1
p.N620ISKCM1
p.R151QTHCA1
p.R648QHNSC1
p.C411YCHOL1
p.E287KBLCA1
p.R236QSKCM1
p.D577NBLCA1
p.E669KLUSC1
p.G345VLUSC1
p.G316WBLCA1
p.R645HCESC1
p.R953QSKCM1
p.A430DLIHC1
p.V668MLUSC1
p.E587DLUAD1
p.Y109CPRAD1
p.R181WLUAD1
p.R949QESCA1
p.K135RLUAD1
p.D225NSKCM1
p.Y393HSTAD1
p.T521MBRCA1
p.E887KBLCA1
p.E287DSTAD1
p.P878ABLCA1
p.F127SBLCA1
p.A250VTGCT1
p.R767HLUAD1
p.D357NSKCM1
p.N259HUCEC1
p.F325LLUAD1
p.P654SSKCM1
p.E617KHNSC1
p.D299NSTAD1
p.D282NSTAD1
p.R898*UCEC1
p.R647WTHCA1
p.G351RPAAD1
p.P635RSKCM1
p.M424ISKCM1
p.L448RSTAD1
p.G466DSKCM1
p.E672*BLCA1
p.S646PBRCA1
p.C179FKIRC1
p.R191SLUAD1
p.P317LBLCA1
p.G192CLUAD1
p.D620NSKCM1
p.K596RHNSC1
p.E586KBLCA1
p.D873NGBM1
p.Y297CUCS1
p.H849YCESC1


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TissGeneCNV for PCSK6

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 PCSK6

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
Chimerdb3.0ChiTaRsNABF846664RPL22-PCSK6chr1:6246042chr15:101870984
Chimerdb3.0FusionScanBRCATCGA-AN-A0FZ-01APCSK6-LINSIn-Framechr15:101983760chr15:101114446


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TissGeneNet for PCSK6

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)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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COAD (tumor)COAD (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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HNSC (tumor)HNSC (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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KICH (tumor)KICH (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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KIRC (tumor)KIRC (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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KIRP (tumor)KIRP (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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LIHC (tumor)LIHC (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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LUAD (tumor)LUAD (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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LUSC (tumor)LUSC (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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PRAD (tumor)PRAD (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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STAD (tumor)STAD (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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THCA (tumor)THCA (normal)
PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (tumor)PCSK6, RXRB, E2F1, CACNA1A, TFDP1, FLG, PMCH, RCN3 (normal)
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TissGeneProg for PCSK6

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 PCSK6
TissGeneDrug for PCSK6

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 PCSK6

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0178874Tumor Progression4BeFree
umls:C0006142Malignant neoplasm of breast3BeFree
umls:C0376358Malignant neoplasm of prostate3BeFree
umls:C0600139Prostate carcinoma3BeFree
umls:C0678222Breast Carcinoma3BeFree
umls:C0027627Neoplasm Metastasis2BeFree
umls:C0029925Ovarian Carcinoma2BeFree
umls:C0596263Carcinogenesis2BeFree
umls:C1140680Malignant neoplasm of ovary2BeFree
umls:C0003850Arteriosclerosis1BeFree
umls:C0003873Rheumatoid Arthritis1BeFree
umls:C0004153Atherosclerosis1BeFree
umls:C0017636Glioblastoma1BeFree
umls:C0017638Glioma1BeFree
umls:C0019693HIV Infections1BeFree
umls:C0027819Neuroblastoma1BeFree
umls:C0029408Degenerative polyarthritis1BeFree
umls:C0037286Skin Neoplasms1BeFree
umls:C0040336Tobacco Use Disorder1GAD
umls:C0150055Chronic pain1BeFree
umls:C0231749Knee pain1BeFree
umls:C0280100Solid tumour1BeFree
umls:C0409959Osteoarthritis, Knee1BeFree
umls:C0476254Dyslexia1BeFree
umls:C0553723Squamous cell carcinoma of skin1BeFree
umls:C0555198Malignant Glioma1BeFree
umls:C0577631Carotid Atherosclerosis1BeFree
umls:C0700095Central neuroblastoma1BeFree
umls:C0919267ovarian neoplasm1LHGDN
umls:C1272641Systemic arterial pressure1GAD
umls:C1458155Mammary Neoplasms1LHGDN