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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 HGFAC
check button Gene summary
Basic gene informationGene symbolHGFAC
Gene nameHGF activator
SynonymsHGFA
CytomapUCSC genome browser: 4p16
Type of geneprotein-coding
RefGenesNM_001297439.1,
NM_001528.3,
Descriptionhepatocyte growth factor activator
Modification date20141207
dbXrefs MIM : 604552
HGNC : HGNC
Ensembl : ENSG00000109758
HPRD : 05184
Vega : OTTHUMG00000090281
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_HGFAC
BioGPS: 3083
PathwayNCI Pathway Interaction Database: HGFAC
KEGG: HGFAC
REACTOME: HGFAC
Pathway Commons: HGFAC
ContextiHOP: HGFAC
ligand binding site mutation search in PubMed: HGFAC
UCL Cancer Institute: HGFAC
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesHPA,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 HGFAC
Description by TissGene annotations
* 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 HGFAC

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
LIHC5.5496814610.61695146-5.067273.45E-104.12E-09
KICH-1.497708540.55351546-2.0512243.53E-102.50E-09
KIRP2.1548355850.849557461.3052781250.01180.02546256


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TissGene-miRNA for HGFAC

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 HGFAC
TissGeneSNV for HGFAC

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.P654SSKCM2
p.F231LCOAD2
p.Y294*UCEC1
p.G434WUCEC1
p.K399NCESC1
p.A218SCOAD1
p.E524KSTAD1
p.W236XLIHC1
p.G478DSTAD1
p.V351LLUAD1
p.P14LCOAD1
p.C245*LUAD1
p.K400NCESC1
p.R650WUCEC1
p.G167SSKCM1
p.G254SSKCM1
p.R646QUCEC1
p.P249HKIRP1
p.V458IGBM1
p.A191VUCEC1
p.A51VCOAD1
p.W310CSKCM1
p.P377SSKCM1
p.T476PUCS1
p.S92LHNSC1
p.K131ELUAD1
p.R396WLIHC1
p.E480KSKCM1
p.G214CBRCA1
p.V225MBRCA1
p.S62YLUAD1
p.E556KSKCM1
p.P389SSKCM1
p.F112LSTAD1
p.G214CCOAD1
p.G623RCESC1
p.G296VCOAD1
p.G239DKICH1
p.C175RSTAD1
p.E238KSKCM1
p.R644QBRCA1
p.R117CACC1
p.E205*CESC1
p.E76DUCEC1
p.R117HHNSC1
p.G614SGBM1
p.V437FLUAD1
p.G253ESTAD1
p.R633HSTAD1
p.P601ASTAD1
p.F112LCESC1
p.R31WBLCA1
p.R117HSTAD1
p.Y361XKIRP1
p.G167SHNSC1
p.G194DPAAD1
p.E229QBLCA1
p.V473MLIHC1
p.C521YBRCA1
p.D564NSTAD1
p.G39VLUAD1
p.T193ISKCM1
p.E480KSTAD1
p.A424PLUAD1
p.W640*SKCM1
p.A563TPRAD1
p.G428VTHYM1
p.H185QUCEC1
p.R624WBRCA1
p.R109KUCEC1


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TissGeneCNV for HGFAC

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 HGFAC

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


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TissGeneNet for HGFAC

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)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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COAD (tumor)COAD (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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HNSC (tumor)HNSC (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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KICH (tumor)KICH (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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KIRC (tumor)KIRC (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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KIRP (tumor)KIRP (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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LIHC (tumor)LIHC (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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LUAD (tumor)LUAD (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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LUSC (tumor)LUSC (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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PRAD (tumor)PRAD (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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STAD (tumor)STAD (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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THCA (tumor)THCA (normal)
HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (tumor)HGFAC, SPINT1, HNF1A, F2, MET, HGF, SPINT2, KLKB1 (normal)
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TissGeneProg for HGFAC

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 HGFAC
TissGeneDrug for HGFAC

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 HGFAC

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C2239176Liver carcinoma3BeFree,CTD_human
umls:C0036572Seizures2BeFree
umls:C0376358Malignant neoplasm of prostate2BeFree
umls:C0600139Prostate carcinoma2BeFree
umls:C0001418Adenocarcinoma1BeFree
umls:C0003130Anoxia1LHGDN
umls:C0005411Biliary Atresia1BeFree
umls:C0007103Malignant neoplasm of endometrium1BeFree
umls:C0007134Renal Cell Carcinoma1BeFree
umls:C0007847Malignant tumor of cervix1BeFree
umls:C0017636Glioblastoma1BeFree
umls:C0020503Hyperparathyroidism, Secondary1GAD
umls:C0025149Medulloblastoma1BeFree
umls:C0025202melanoma1BeFree
umls:C0026764Multiple Myeloma1LHGDN
umls:C0027627Neoplasm Metastasis1BeFree
umls:C0029925Ovarian Carcinoma1BeFree
umls:C0030297Pancreatic Neoplasm1LHGDN
umls:C0041341Tuberous Sclerosis1BeFree
umls:C0079731B-Cell Lymphomas1LHGDN
umls:C0235974Pancreatic carcinoma1BeFree
umls:C0239946Fibrosis, Liver1BeFree
umls:C0280631Leiomyosarcoma of uterus1BeFree
umls:C0302592Cervix carcinoma1BeFree
umls:C0346647Malignant neoplasm of pancreas1BeFree
umls:C0476089Endometrial Carcinoma1BeFree
umls:C0596263Carcinogenesis1BeFree
umls:C0677886Epithelial ovarian cancer1BeFree
umls:C1140680Malignant neoplasm of ovary1BeFree
umls:C1561955Fibrinogen Adverse Event1GWASCAT
umls:C1883486Uterine Corpus Cancer1BeFree