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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 GC
check button Gene summary
Basic gene informationGene symbolGC
Gene namegroup-specific component (vitamin D binding protein)
SynonymsDBP|DBP/GC|GRD3|HEL-S-51|VDBG|VDBP
CytomapUCSC genome browser: 4q12-q13
Type of geneprotein-coding
RefGenesNM_000583.3,
NM_001204306.1,NM_001204307.1,
DescriptionVDBepididymis secretory protein Li 51gc-globulinvitamin D-binding alpha-globulinvitamin D-binding protein
Modification date20141207
dbXrefs MIM : 139200
HGNC : HGNC
Ensembl : ENSG00000145321
HPRD : 00749
Vega : OTTHUMG00000129915
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GC
BioGPS: 2638
PathwayNCI Pathway Interaction Database: GC
KEGG: GC
REACTOME: GC
Pathway Commons: GC
ContextiHOP: GC
ligand binding site mutation search in PubMed: GC
UCL Cancer Institute: GC
Assigned class in TissGDB*A
Included tissue-specific gene expression resourcesHPA,TiGER,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 GCVitamin D-binding protein gene transcription is regulated by the relative abundance of hepatocyte nuclear factors 1alpha and 1beta. Song YH, Ray K, Liebhaber SA, Cooke NE. J Biol Chem. 1998 Oct 23;273(43):28408-18. (pmid:9774468)
go to article
Description by TissGene annotationsTissgsKTS
* 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 GC

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-2.3422529992.466551001-4.8088049.92E-084.56E-07
LIHC12.75931714.419339-1.6600222.53E-071.57E-06
KIRP-1.2662822493.579839626-4.8461218751.32E-091.22E-08
KIRC0.8815948352.350967057-1.4693722220.009690.01625396


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TissGene-miRNA for GC

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 GC
TissGeneSNV for GC

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.G187XKIRP2
p.G107CLGG1
p.S6GESCA1
p.S181NSKCM1
p.H464YSTAD1
p.E118*LUAD1
p.T401PUCEC1
p.P458LSKCM1
p.K19EUCEC1
p.M306LOV1
p.G116DSTAD1
p.E267KBLCA1
p.E38KSKCM1
p.P357SSKCM1
p.F159SUCEC1
p.D142NSKCM1
p.T113NUCS1
p.G135DSTAD1
p.F333VSTAD1
p.N26TUCEC1
p.L474MUCEC1
p.I261LUCEC1
p.Y67FUCEC1
p.C284XSTAD1
p.T196NLUAD1
p.R251KKIRC1
p.A79DLUAD1
p.L236IUCEC1
p.V283ELUAD1
p.L54QLUSC1
p.H128PBRCA1
p.E424GHNSC1
p.S61NLUAD1
p.S100YCOAD1
p.A255THNSC1
p.C319RUCEC1
p.C266YLUAD1
p.D298HLUAD1
p.D344EUCEC1
p.C265*STAD1
p.A224THNSC1
p.D336YHNSC1
p.D250NSKCM1
p.R50TBLCA1
p.V283IUCEC1
p.L254QCOAD1
p.L406RSARC1
p.L388VGBM1
p.L384FUCEC1
p.T414AUCEC1
p.G338ESKCM1
p.M185ISKCM1
p.E366*LUAD1
p.K419TSTAD1
p.L445PGBM1
p.K94MLUAD1
p.G473WESCA1
p.T132NUCS1
p.S73RLUSC1
p.E72*HNSC1
p.D104GSTAD1
p.D336NSKCM1
p.D377NSKCM1
p.F314VSTAD1
p.S69CHNSC1
p.Y48FUCEC1
p.E24KSKCM1
p.E377DDLBC1
p.D85GSTAD1
p.L365FUCEC1
p.M185TOV1
p.C286YACC1
p.T310ALUSC1
p.S216*HNSC1
p.L15HLIHC1
p.R19TBLCA1
p.E393KLUSC1
p.G78RLUAD1
p.C305YACC1
p.L285HUCEC1
p.C164YSTAD1
p.K207*HNSC1
p.D325EUCEC1
p.V364GUCEC1
p.E277*LUAD1
p.K2NBLCA1


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TissGeneCNV for GC

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 GC

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
Chimerdb3.0ChiTaRsNAAI174810GC-GCchr4:72611923chr4:72622540


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TissGeneNet for GC

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)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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COAD (tumor)COAD (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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HNSC (tumor)HNSC (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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KICH (tumor)KICH (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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KIRC (tumor)KIRC (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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KIRP (tumor)KIRP (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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LIHC (tumor)LIHC (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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LUAD (tumor)LUAD (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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LUSC (tumor)LUSC (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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PRAD (tumor)PRAD (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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STAD (tumor)STAD (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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THCA (tumor)THCA (normal)
GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (tumor)GC, GRB2, RIF1, ACTC1, ACTA2, ACTA1, CDC73, PIK3R3, CCND3, LRP2, C3, CUBN, SERF2 (normal)
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TissGeneProg for GC

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 GC
TissGeneDrug for GC

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 GC

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0024117Chronic Obstructive Airway Disease14BeFree,GAD,LHGDN
umls:C0011860Diabetes Mellitus, Non-Insulin-Dependent9BeFree,GAD,LHGDN
umls:C0029456Osteoporosis8BeFree,LHGDN
umls:C0020538Hypertensive disease7BeFree
umls:C0004096Asthma6BeFree,GAD
umls:C0028754Obesity6BeFree
umls:C0041296Tuberculosis6BeFree,GAD,LHGDN
umls:C0019693HIV Infections5BeFree
umls:C0162557Liver Failure, Acute4CTD_human,LHGDN
umls:C0376358Malignant neoplasm of prostate4BeFree,GAD
umls:C0600139Prostate carcinoma4BeFree
umls:C0002395Alzheimer's Disease3GAD
umls:C0003873Rheumatoid Arthritis3BeFree,CTD_human,GAD
umls:C0006142Malignant neoplasm of breast3BeFree,GAD
umls:C0009402Colorectal Carcinoma3BeFree
umls:C0011849Diabetes Mellitus3BeFree
umls:C0018213Graves Disease3BeFree,CTD_human,GAD
umls:C0025202melanoma3BeFree
umls:C0026769Multiple Sclerosis3BeFree
umls:C0042870Vitamin D Deficiency3BeFree,GAD,GWASCAT
umls:C0497406Overweight3BeFree
umls:C0678222Breast Carcinoma3BeFree
umls:C1527249Colorectal Cancer3BeFree
umls:C0001175Acquired Immunodeficiency Syndrome2BeFree
umls:C0003850Arteriosclerosis2BeFree
umls:C0004153Atherosclerosis2BeFree
umls:C0004364Autoimmune Diseases2BeFree
umls:C0005684Malignant neoplasm of urinary bladder2BeFree,GAD
umls:C0007102Malignant tumor of colon2BeFree
umls:C0010674Cystic Fibrosis2BeFree,LHGDN
umls:C0011436Dentinogenesis Imperfecta2BeFree
umls:C0011847Diabetes2BeFree
umls:C0011854Diabetes Mellitus, Insulin-Dependent2BeFree
umls:C0014175Endometriosis2BeFree,LHGDN
umls:C0019163Hepatitis B2BeFree
umls:C0035579Rickets2BeFree
umls:C0036341Schizophrenia2BeFree
umls:C0149931Migraine Disorders2BeFree
umls:C0151779Cutaneous Melanoma2BeFree
umls:C0524910Hepatitis C, Chronic2BeFree
umls:C0699790Colon Carcinoma2BeFree
umls:C1458155Mammary Neoplasms2BeFree,LHGDN
umls:C1956346Coronary Artery Disease2GAD
umls:C2239176Liver carcinoma2BeFree,RGD
umls:C0001857AIDS related complex1BeFree
umls:C0003469Anxiety Disorders1BeFree
umls:C0003864Arthritis1BeFree
umls:C0004352Autistic Disorder1BeFree
umls:C0005716Blastomycosis1BeFree
umls:C0005944Metabolic Bone Disorder1CTD_human
umls:C0006271Bronchiolitis1BeFree
umls:C0006663Calcinosis1GAD
umls:C0007125Carcinoma, Ehrlich Tumor1BeFree
umls:C0007134Renal Cell Carcinoma1BeFree
umls:C0007786Brain Ischemia1RGD
umls:C0008533Hemophilia B1BeFree
umls:C0011570Mental Depression1GAD
umls:C0011853Diabetes Mellitus, Experimental1RGD
umls:C0011881Diabetic Nephropathy1BeFree
umls:C0015695Fatty Liver1BeFree
umls:C0016059Fibrosis1LHGDN
umls:C0017638Glioma1BeFree
umls:C0018995Hemochromatosis1BeFree
umls:C0019151Hepatic Encephalopathy1CTD_human
umls:C0019348Herpes Simplex Infections1BeFree
umls:C0020456Hyperglycemia1BeFree
umls:C0020503Hyperparathyroidism, Secondary1GAD
umls:C0020542Pulmonary Hypertension1BeFree
umls:C0021368Inflammation1GAD
umls:C0021390Inflammatory Bowel Diseases1BeFree
umls:C0023890Liver Cirrhosis1CTD_human
umls:C0023891Liver Cirrhosis, Alcoholic1GAD
umls:C0024121Lung Neoplasms1CTD_human
umls:C0024299Lymphoma1BeFree
umls:C0025268Multiple Endocrine Neoplasia Type 2a1BeFree
umls:C0027092Myopia1BeFree
umls:C0029408Degenerative polyarthritis1BeFree
umls:C0029458Osteoporosis, Postmenopausal1GAD
umls:C0030567Parkinson Disease1GAD
umls:C0032969Pregnancy in Diabetics1RGD
umls:C0033578Prostatic Neoplasms1LHGDN
umls:C0035436Rheumatic Fever1BeFree
umls:C0036572Seizures1BeFree
umls:C0036983Septic Shock1CTD_human
umls:C0038013Ankylosing spondylitis1BeFree
umls:C0038443Stress, Psychological1BeFree
umls:C0040147Thyroiditis1BeFree
umls:C0041341Tuberous Sclerosis1BeFree
umls:C0042164Uveitis1BeFree
umls:C0085207Gestational Diabetes1BeFree
umls:C0221757alpha 1-Antitrypsin Deficiency1BeFree
umls:C0235974Pancreatic carcinoma1BeFree
umls:C0242379Malignant neoplasm of lung1GAD
umls:C0264408Childhood asthma1BeFree
umls:C0264423Asthma, Occupational1BeFree
umls:C0268450Gitelman Syndrome1BeFree
umls:C0341439Chronic liver disease1BeFree
umls:C0346647Malignant neoplasm of pancreas1BeFree
umls:C0375023Respiratory syncytial virus (RSV) infection in conditions classified elsewhere and of unspecified site1BeFree
umls:C0400966Non-alcoholic Fatty Liver Disease1BeFree
umls:C0595921Intraocular pressure disorder1BeFree
umls:C0699885Carcinoma of bladder1BeFree
umls:C0860207Drug-Induced Liver Injury1CTD_human
umls:C0878555Diffuse panbronchiolitis1BeFree
umls:C1168279Melalgia1BeFree
umls:C1292769Precursor B-cell lymphoblastic leukemia1BeFree
umls:C1519346Skin Carcinogenesis1BeFree
umls:C1861172Venous Thromboembolism1GAD
umls:C2711227Steatohepatitis1BeFree