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 CHGB
check button Gene summary
Basic gene informationGene symbolCHGB
Gene namechromogranin B (secretogranin 1)
SynonymsSCG1
CytomapUCSC genome browser: 20p12.3
Type of geneprotein-coding
RefGenesNM_001819.2,
DescriptioncgBchromogranin-Bsecretogranin Bsecretogranin Isecretogranin-1sgI
Modification date20141207
dbXrefs MIM : 118920
HGNC : HGNC
Ensembl : ENSG00000089199
HPRD : 07512
Vega : OTTHUMG00000031821
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CHGB
BioGPS: 1114
PathwayNCI Pathway Interaction Database: CHGB
KEGG: CHGB
REACTOME: CHGB
Pathway Commons: CHGB
ContextiHOP: CHGB
ligand binding site mutation search in PubMed: CHGB
UCL Cancer Institute: CHGB
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)PancreasAdrenal gland
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)PAADPCPG,ACC
Reference showing the relevant tissue of CHGB
Description by TissGene annotationsCancer gene
* 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


Top
TissGeneExp for CHGB

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-0.041918483.29944152-3.341361.62E-054.90E-05
COAD-1.5441789412.362594135-3.9067730774.02E-093.99E-08
KIRP0.652253273.208437645-2.5561843757.64E-063.27E-05
PRAD0.1481172121.778096059-1.6299788463.45E-072.76E-06
LUSC-0.857819892-3.0897336172.2319137257.50E-082.14E-07
KIRC-2.1124168693.06805952-5.1804763893.15E-381.12E-36
ESCA-3.331690480.182700429-3.5143909090.001420.018468304
LUAD-1.189138756-2.7523870321.5632482760.001880.003952052
STAD-1.856146730.86787827-2.7240250.0003820.002461656
BRCA-3.745383462-2.615043111-1.1303403510.000230.000486323


Top
TissGene-miRNA for CHGB

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


Top
TissGeneMut for CHGB
TissGeneSNV for CHGB

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.E344KSKCM2
p.P300SSKCM2
p.E252KSKCM2
p.R155CCOAD2
p.D164NSKCM2
p.E537KSKCM2
p.L666VSTAD1
p.Q138*SKCM1
p.A372VHNSC1
p.P143TLUAD1
p.H509NACC1
p.E360KHNSC1
p.G170RSKCM1
p.T434NBRCA1
p.E437KUCEC1
p.E671DCESC1
p.R469SOV1
p.S46LSKCM1
p.V68IREAD1
p.R277*GBM1
p.G240RSKCM1
p.Q256*SKCM1
p.D88GLIHC1
p.P51SSKCM1
p.E121KSKCM1
p.E498KSKCM1
p.E110GSTAD1
p.E408QBLCA1
p.D544NBLCA1
p.L41ISTAD1
p.E150KSKCM1
p.N588TSKCM1
p.E151GLUSC1
p.Q376*STAD1
p.G423ESKCM1
p.R277QREAD1
p.E494DUCS1
p.R280KSKCM1
p.E652KSKCM1
p.E360VLIHC1
p.R417CHNSC1
p.Q502XSKCM1
p.V604ACESC1
p.E30KSKCM1
p.A50TLUAD1
p.E559KLUSC1
p.D540ELUSC1
p.R435KLUAD1
p.P524SSKCM1
p.P55LSKCM1
p.K615NBLCA1
p.R325KBRCA1
p.E671QBLCA1
p.E169GSKCM1
p.D88ELUAD1
p.K653RLGG1
p.R387KSKCM1
p.R258QSKCM1
p.Q376XSTAD1
p.D356YKIRC1
p.A319SLUSC1
p.Q295ECESC1
p.P593TBLCA1
p.E265KSKCM1
p.H510YSKCM1
p.G176ESKCM1
p.G414ESKCM1
p.E121DUCEC1
p.D579YBLCA1
p.E268KSKCM1
p.A197TCOAD1
p.E559XESCA1
p.P621SSKCM1
p.G442SSKCM1
p.E343KUCEC1
p.R277*LUAD1
p.G128RSKCM1
p.Q295EBRCA1
p.E494*UCEC1
p.E404KSKCM1
p.A456TSKCM1
p.E343XCHOL1
p.R361CGBM1
p.N200HCOAD1
p.E619KSKCM1
p.E355KSKCM1
p.V351IUCEC1
p.G424VSTAD1
p.S293FSKCM1
p.E242DLUAD1
p.L529VESCA1
p.R277QSKCM1
p.E77KSKCM1
p.E190*LUSC1
p.G677DLGG1
p.E665QBLCA1
p.R58HPRAD1
p.P413LCOAD1
p.H249QLUAD1
p.G114DGBM1
p.S320CLUAD1
p.E437DBRCA1
p.E337KSKCM1
p.Y613CLUAD1
p.R363KSKCM1
p.E247*LUSC1
p.H510YBLCA1
p.P300LSKCM1
p.Q452*SKCM1
p.K482TSKCM1
p.R469TBLCA1
p.S217LSKCM1
p.P143HLUAD1
p.D488NBLCA1
p.G402VACC1
p.I112TBLCA1
p.E94DSTAD1
p.V68ILGG1
p.E261KSKCM1
p.R258*SKCM1
p.K668NSTAD1
p.A590TREAD1
p.M318ILUSC1
p.N196KBLCA1
p.R439MTHCA1
p.Q452XSKCM1
p.H510NLIHC1
p.S432FBRCA1
p.S49ILUAD1
p.N27YLGG1
p.E425KSKCM1
p.P575SSTAD1
p.D291NPAAD1
p.F440LBLCA1
p.P629QCOAD1
p.E338KSTAD1
p.F563LBRCA1
p.P349SSKCM1
p.H459NLUAD1
p.A90VSKCM1
p.F501LCOAD1
p.K560NUCEC1
p.G170ESKCM1
p.G410DSKCM1
p.L357MLUAD1
p.A590TGBM1
p.E313DSTAD1
p.G179RLIHC1
p.W359*LUAD1
p.P349LSKCM1
p.R277*BRCA1
p.E169GHNSC1
p.A590TSARC1
p.E437DSTAD1
p.E310KHNSC1
p.Q376HLUAD1
p.Q502*SKCM1
p.E379KSKCM1
p.E466KREAD1
p.P143LSKCM1
p.H96NLUAD1
p.A197SSARC1
p.E639KSKCM1
p.P281HSTAD1
p.G478ESKCM1
p.T63MLUAD1
p.Q256XSKCM1
p.K586NTHYM1
p.G192RLUSC1
p.R258XSKCM1


Top
TissGeneCNV for CHGB

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 CHGB

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
Chimerdb3.0ChiTaRsNABC042679MON2-CHGBchr12:62926331chr20:5904344
Chimerdb3.0ChiTaRsNADA012276CHGB-CYP17A1chr20:5904341chr10:104596821
Chimerdb3.0TopHat-FusionPCPGTCGA-QT-A7U0-01AINS-IGF2-CHGB3'UTR-5'UTRchr11:2160396chr20:5903346
Chimerdb3.0TopHat-FusionPCPGTCGA-QR-A6GU-01ACHGA-CHGB3'UTR-CDSchr14:93401261chr20:5903429
Chimerdb3.0TopHat-FusionPCPGTCGA-QR-A70H-01APCBD2-CHGBOut-of-Framechr5:134262993chr20:5903897
Chimerdb3.0TopHat-FusionPCPGTCGA-QR-A70H-01APCBD2-CHGBOut-of-Framechr5:134264007chr20:5903876
Chimerdb3.0TopHat-FusionPCPGTCGA-RW-A688-01APCBD2-CHGBOut-of-Framechr5:134263441chr20:5903925
Chimerdb3.0TopHat-FusionPCPGTCGA-RW-A688-01APCBD2-CHGBOut-of-Framechr5:134264007chr20:5903876


Top
TissGeneNet for CHGB

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)
CHGB, RCC1, CDKN1A, TK1, SMAD2, PTEN, ANXA7, RXRG, SAFB2, FGFR3, SLC25A6, POLD1, RAP1B, ATXN2, RAC2, UBTF, PKN2, MOGS, CBFB, SGK223, MGLL (tumor)CHGB, RCC1, CDKN1A, TK1, S100A8, SMAD2, PTEN, RXRG, SAFB2, FGFR3, SLC25A6, POLD1, MARK3, YLPM1, RAP1B, POLR2E, RAC2, UBTF, CBFB, SGK223, MGLL (normal)
bullet pointbullet point
COAD (tumor)COAD (normal)
CHGB, CDKN1A, S100A8, SMAD2, PTEN, RXRG, TUBB2A, TAZ, UBQLN1, FGFR3, SLC25A6, POLR2E, RAC2, UBTF, PKN2, CBFB, TWF2, OGG1, SGK223, CCDC92, MGLL (tumor)CHGB, RCC1, TK1, S100A8, SMAD2, RXRG, TUBB2A, TAZ, UBQLN1, FGFR3, SLC25A6, MARK3, YLPM1, ATXN2, POLR2E, RAC2, UBTF, TWF2, SGK223, CCDC92, MGLL (normal)
bullet pointbullet point
HNSC (tumor)HNSC (normal)
CHGB, RCC1, TK1, S100A8, SMAD2, PTEN, RXRG, SAFB2, TAZ, UBQLN1, FGFR3, SLC25A6, YLPM1, ACACA, RAC2, PKN2, CBFB, TWF2, OGG1, SGK223, CCDC92 (tumor)CHGB, RCC1, CDKN1A, TK1, S100A8, PTEN, RXRG, SAFB2, TAZ, FGFR3, POLD1, MARK3, YLPM1, ACACA, ATXN2, POLR2E, CBFB, TWF2, OGG1, CCDC92, MGLL (normal)
bullet pointbullet point
KICH (tumor)KICH (normal)
CHGB, RCC1, CDKN1A, TK1, SMAD2, PTEN, ANXA7, RXRG, TUBB2A, UBQLN1, FGFR3, SLC25A6, POLD1, MARK3, ACACA, POLR2E, RAC2, PKN2, MOGS, TWF2, SGK223 (tumor)CHGB, CDKN1A, TK1, S100A8, ANXA7, TUBB2A, SAFB2, TAZ, UBQLN1, MARK3, YLPM1, ATXN2, POLR2E, RAC2, UBTF, MOGS, TWF2, OGG1, SGK223, CCDC92, MGLL (normal)
bullet pointbullet point
KIRC (tumor)KIRC (normal)
CHGB, RCC1, S100A8, SMAD2, PTEN, ANXA7, TUBB2A, TAZ, UBQLN1, FGFR3, SLC25A6, MARK3, YLPM1, RAP1B, ACACA, RAC2, UBTF, CBFB, TWF2, OGG1, SGK223 (tumor)CHGB, RCC1, TK1, S100A8, PTEN, RXRG, TUBB2A, SAFB2, UBQLN1, FGFR3, SLC25A6, POLD1, MARK3, YLPM1, ACACA, ATXN2, RAC2, PKN2, TWF2, SGK223, MGLL (normal)
bullet pointbullet point
KIRP (tumor)KIRP (normal)
CHGB, RCC1, CDKN1A, SMAD2, PTEN, ANXA7, TUBB2A, SAFB2, TAZ, FGFR3, SLC25A6, POLD1, MARK3, ACACA, RAC2, PKN2, TWF2, OGG1, SGK223, CCDC92, MGLL (tumor)CHGB, TK1, S100A8, PTEN, ANXA7, TAZ, UBQLN1, FGFR3, POLD1, YLPM1, ACACA, ATXN2, POLR2E, UBTF, PKN2, MOGS, CBFB, TWF2, OGG1, SGK223, CCDC92 (normal)
bullet pointbullet point
LIHC (tumor)LIHC (normal)
CHGB, CDKN1A, TK1, S100A8, PTEN, ANXA7, RXRG, TUBB2A, TAZ, UBQLN1, SLC25A6, POLD1, YLPM1, RAP1B, ATXN2, RAC2, PKN2, TWF2, SGK223, CCDC92, MGLL (tumor)CHGB, CDKN1A, TK1, SMAD2, ANXA7, SAFB2, TAZ, UBQLN1, FGFR3, SLC25A6, POLD1, MARK3, YLPM1, ATXN2, RAC2, UBTF, MOGS, CBFB, SGK223, CCDC92, MGLL (normal)
bullet pointbullet point
LUAD (tumor)LUAD (normal)
CHGB, RCC1, CDKN1A, TK1, S100A8, SMAD2, ANXA7, SAFB2, TAZ, UBQLN1, FGFR3, SLC25A6, YLPM1, RAP1B, ATXN2, POLR2E, UBTF, PKN2, CBFB, TWF2, SGK223 (tumor)CHGB, RCC1, CDKN1A, PTEN, TUBB2A, SAFB2, TAZ, UBQLN1, SLC25A6, MARK3, YLPM1, ACACA, RAC2, UBTF, PKN2, MOGS, CBFB, TWF2, OGG1, CCDC92, MGLL (normal)
bullet pointbullet point
LUSC (tumor)LUSC (normal)
CHGB, CDKN1A, TK1, S100A8, ANXA7, SAFB2, UBQLN1, FGFR3, POLD1, MARK3, YLPM1, RAP1B, ACACA, ATXN2, RAC2, UBTF, MOGS, TWF2, OGG1, SGK223, MGLL (tumor)CHGB, RCC1, S100A8, SMAD2, ANXA7, RXRG, TUBB2A, SAFB2, TAZ, UBQLN1, FGFR3, SLC25A6, MARK3, YLPM1, ACACA, ATXN2, RAC2, UBTF, MOGS, CBFB, TWF2 (normal)
bullet pointbullet point
PRAD (tumor)PRAD (normal)
CHGB, RCC1, CDKN1A, TK1, SMAD2, PTEN, RXRG, SAFB2, TAZ, FGFR3, SLC25A6, POLD1, MARK3, RAP1B, ACACA, PKN2, MOGS, CBFB, OGG1, CCDC92, MGLL (tumor)CHGB, TK1, SMAD2, RXRG, TUBB2A, SAFB2, UBQLN1, SLC25A6, POLD1, YLPM1, RAP1B, ACACA, ATXN2, RAC2, PKN2, CBFB, TWF2, OGG1, SGK223, CCDC92, MGLL (normal)
bullet pointbullet point
STAD (tumor)STAD (normal)
CHGB, CDKN1A, S100A8, PTEN, ANXA7, RXRG, TUBB2A, UBQLN1, FGFR3, SLC25A6, MARK3, RAP1B, ACACA, POLR2E, RAC2, PKN2, MOGS, CBFB, OGG1, CCDC92, MGLL (tumor)CHGB, RCC1, CDKN1A, TK1, S100A8, SMAD2, RXRG, TUBB2A, TAZ, POLD1, YLPM1, ACACA, ATXN2, POLR2E, RAC2, UBTF, PKN2, CBFB, OGG1, SGK223, CCDC92 (normal)
bullet pointbullet point
THCA (tumor)THCA (normal)
CHGB, RCC1, TK1, S100A8, SMAD2, PTEN, ANXA7, TUBB2A, TAZ, UBQLN1, POLD1, MARK3, YLPM1, RAP1B, RAC2, UBTF, CBFB, TWF2, OGG1, SGK223, CCDC92 (tumor)CHGB, RCC1, CDKN1A, TK1, S100A8, ANXA7, RXRG, TUBB2A, SAFB2, TAZ, UBQLN1, FGFR3, POLD1, MARK3, RAP1B, RAC2, UBTF, CBFB, TWF2, OGG1, MGLL (normal)
bullet pointbullet point


Top
TissGeneProg for CHGB

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 CHGB
TissGeneDrug for CHGB

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


Top
TissGeneDisease for CHGB

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0002736Amyotrophic Lateral Sclerosis5BeFree,LHGDN
umls:C0032000Pituitary Adenoma3BeFree
umls:C0032002Pituitary Diseases3BeFree
umls:C0036341Schizophrenia3BeFree,GAD,LHGDN
umls:C0020538Hypertensive disease2GAD,LHGDN
umls:C0027627Neoplasm Metastasis2BeFree
umls:C0027819Neuroblastoma2BeFree
umls:C0029925Ovarian Carcinoma2BeFree
umls:C0153594Malignant neoplasm of testis2BeFree
umls:C1140680Malignant neoplasm of ovary2BeFree
umls:C0002395Alzheimer's Disease1LHGDN
umls:C0006142Malignant neoplasm of breast1BeFree
umls:C0007222Cardiovascular Diseases1BeFree
umls:C0018801Heart failure1BeFree
umls:C0018802Congestive heart failure1BeFree
umls:C0020217Hydatidiform Mole1BeFree
umls:C0022336Creutzfeldt-Jakob disease1LHGDN
umls:C0023434Chronic Lymphocytic Leukemia1BeFree
umls:C0023467Leukemia, Myelocytic, Acute1BeFree
umls:C0031511Pheochromocytoma1BeFree
umls:C0032019Pituitary Neoplasms1BeFree
umls:C0178874Tumor Progression1BeFree
umls:C0221765Chronic schizophrenia1BeFree
umls:C0278601Inflammatory Breast Carcinoma1BeFree
umls:C0334634Malignant lymphoma, lymphocytic, intermediate differentiation, diffuse1BeFree
umls:C0677886Epithelial ovarian cancer1BeFree
umls:C0678222Breast Carcinoma1BeFree
umls:C0700095Central neuroblastoma1BeFree
umls:C1335302Pancreatic Ductal Adenocarcinoma1BeFree
umls:C1709286Null Cell Pituitary Gland Adenoma1BeFree