TissGeneSummary for CHGB |
Gene summary |
Basic gene information | Gene symbol | CHGB |
Gene name | chromogranin B (secretogranin 1) | |
Synonyms | SCG1 | |
Cytomap | UCSC genome browser: 20p12.3 | |
Type of gene | protein-coding | |
RefGenes | NM_001819.2, | |
Description | cgBchromogranin-Bsecretogranin Bsecretogranin Isecretogranin-1sgI | |
Modification date | 20141207 | |
dbXrefs | MIM : 118920 | |
HGNC : HGNC | ||
Ensembl : ENSG00000089199 | ||
HPRD : 07512 | ||
Vega : OTTHUMG00000031821 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_CHGB | |
BioGPS: 1114 | ||
Pathway | NCI Pathway Interaction Database: CHGB | |
KEGG: CHGB | ||
REACTOME: CHGB | ||
Pathway Commons: CHGB | ||
Context | iHOP: CHGB | |
ligand binding site mutation search in PubMed: CHGB | ||
UCL Cancer Institute: CHGB | ||
Assigned class in TissGDB* | C | |
Included tissue-specific gene expression resources | HPA,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 annotations | Cancer 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. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO term | PubMed ID |
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TissGeneExp for CHGB |
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 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 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. |
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) |
- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05) |
Cancer type | Mean(exp) in tumor | Mean(exp) in matched normal | Log2FC | P-val. | FDR |
KICH | -0.04191848 | 3.29944152 | -3.34136 | 1.62E-05 | 4.90E-05 |
COAD | -1.544178941 | 2.362594135 | -3.906773077 | 4.02E-09 | 3.99E-08 |
KIRP | 0.65225327 | 3.208437645 | -2.556184375 | 7.64E-06 | 3.27E-05 |
PRAD | 0.148117212 | 1.778096059 | -1.629978846 | 3.45E-07 | 2.76E-06 |
LUSC | -0.857819892 | -3.089733617 | 2.231913725 | 7.50E-08 | 2.14E-07 |
KIRC | -2.112416869 | 3.06805952 | -5.180476389 | 3.15E-38 | 1.12E-36 |
ESCA | -3.33169048 | 0.182700429 | -3.514390909 | 0.00142 | 0.018468304 |
LUAD | -1.189138756 | -2.752387032 | 1.563248276 | 0.00188 | 0.003952052 |
STAD | -1.85614673 | 0.86787827 | -2.724025 | 0.000382 | 0.002461656 |
BRCA | -3.745383462 | -2.615043111 | -1.130340351 | 0.00023 | 0.000486323 |
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TissGene-miRNA for CHGB |
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 type | miRNA id | miRNA accession | P-val. | Coeff. | # samples |
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TissGeneMut for CHGB |
TissGeneSNV for CHGB |
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. |
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) |
- nsSNVs sorted by frequency. |
AAchange | Cancer type | # samples |
p.E344K | SKCM | 2 |
p.P300S | SKCM | 2 |
p.E252K | SKCM | 2 |
p.R155C | COAD | 2 |
p.D164N | SKCM | 2 |
p.E537K | SKCM | 2 |
p.L666V | STAD | 1 |
p.Q138* | SKCM | 1 |
p.A372V | HNSC | 1 |
p.P143T | LUAD | 1 |
p.H509N | ACC | 1 |
p.E360K | HNSC | 1 |
p.G170R | SKCM | 1 |
p.T434N | BRCA | 1 |
p.E437K | UCEC | 1 |
p.E671D | CESC | 1 |
p.R469S | OV | 1 |
p.S46L | SKCM | 1 |
p.V68I | READ | 1 |
p.R277* | GBM | 1 |
p.G240R | SKCM | 1 |
p.Q256* | SKCM | 1 |
p.D88G | LIHC | 1 |
p.P51S | SKCM | 1 |
p.E121K | SKCM | 1 |
p.E498K | SKCM | 1 |
p.E110G | STAD | 1 |
p.E408Q | BLCA | 1 |
p.D544N | BLCA | 1 |
p.L41I | STAD | 1 |
p.E150K | SKCM | 1 |
p.N588T | SKCM | 1 |
p.E151G | LUSC | 1 |
p.Q376* | STAD | 1 |
p.G423E | SKCM | 1 |
p.R277Q | READ | 1 |
p.E494D | UCS | 1 |
p.R280K | SKCM | 1 |
p.E652K | SKCM | 1 |
p.E360V | LIHC | 1 |
p.R417C | HNSC | 1 |
p.Q502X | SKCM | 1 |
p.V604A | CESC | 1 |
p.E30K | SKCM | 1 |
p.A50T | LUAD | 1 |
p.E559K | LUSC | 1 |
p.D540E | LUSC | 1 |
p.R435K | LUAD | 1 |
p.P524S | SKCM | 1 |
p.P55L | SKCM | 1 |
p.K615N | BLCA | 1 |
p.R325K | BRCA | 1 |
p.E671Q | BLCA | 1 |
p.E169G | SKCM | 1 |
p.D88E | LUAD | 1 |
p.K653R | LGG | 1 |
p.R387K | SKCM | 1 |
p.R258Q | SKCM | 1 |
p.Q376X | STAD | 1 |
p.D356Y | KIRC | 1 |
p.A319S | LUSC | 1 |
p.Q295E | CESC | 1 |
p.P593T | BLCA | 1 |
p.E265K | SKCM | 1 |
p.H510Y | SKCM | 1 |
p.G176E | SKCM | 1 |
p.G414E | SKCM | 1 |
p.E121D | UCEC | 1 |
p.D579Y | BLCA | 1 |
p.E268K | SKCM | 1 |
p.A197T | COAD | 1 |
p.E559X | ESCA | 1 |
p.P621S | SKCM | 1 |
p.G442S | SKCM | 1 |
p.E343K | UCEC | 1 |
p.R277* | LUAD | 1 |
p.G128R | SKCM | 1 |
p.Q295E | BRCA | 1 |
p.E494* | UCEC | 1 |
p.E404K | SKCM | 1 |
p.A456T | SKCM | 1 |
p.E343X | CHOL | 1 |
p.R361C | GBM | 1 |
p.N200H | COAD | 1 |
p.E619K | SKCM | 1 |
p.E355K | SKCM | 1 |
p.V351I | UCEC | 1 |
p.G424V | STAD | 1 |
p.S293F | SKCM | 1 |
p.E242D | LUAD | 1 |
p.L529V | ESCA | 1 |
p.R277Q | SKCM | 1 |
p.E77K | SKCM | 1 |
p.E190* | LUSC | 1 |
p.G677D | LGG | 1 |
p.E665Q | BLCA | 1 |
p.R58H | PRAD | 1 |
p.P413L | COAD | 1 |
p.H249Q | LUAD | 1 |
p.G114D | GBM | 1 |
p.S320C | LUAD | 1 |
p.E437D | BRCA | 1 |
p.E337K | SKCM | 1 |
p.Y613C | LUAD | 1 |
p.R363K | SKCM | 1 |
p.E247* | LUSC | 1 |
p.H510Y | BLCA | 1 |
p.P300L | SKCM | 1 |
p.Q452* | SKCM | 1 |
p.K482T | SKCM | 1 |
p.R469T | BLCA | 1 |
p.S217L | SKCM | 1 |
p.P143H | LUAD | 1 |
p.D488N | BLCA | 1 |
p.G402V | ACC | 1 |
p.I112T | BLCA | 1 |
p.E94D | STAD | 1 |
p.V68I | LGG | 1 |
p.E261K | SKCM | 1 |
p.R258* | SKCM | 1 |
p.K668N | STAD | 1 |
p.A590T | READ | 1 |
p.M318I | LUSC | 1 |
p.N196K | BLCA | 1 |
p.R439M | THCA | 1 |
p.Q452X | SKCM | 1 |
p.H510N | LIHC | 1 |
p.S432F | BRCA | 1 |
p.S49I | LUAD | 1 |
p.N27Y | LGG | 1 |
p.E425K | SKCM | 1 |
p.P575S | STAD | 1 |
p.D291N | PAAD | 1 |
p.F440L | BLCA | 1 |
p.P629Q | COAD | 1 |
p.E338K | STAD | 1 |
p.F563L | BRCA | 1 |
p.P349S | SKCM | 1 |
p.H459N | LUAD | 1 |
p.A90V | SKCM | 1 |
p.F501L | COAD | 1 |
p.K560N | UCEC | 1 |
p.G170E | SKCM | 1 |
p.G410D | SKCM | 1 |
p.L357M | LUAD | 1 |
p.A590T | GBM | 1 |
p.E313D | STAD | 1 |
p.G179R | LIHC | 1 |
p.W359* | LUAD | 1 |
p.P349L | SKCM | 1 |
p.R277* | BRCA | 1 |
p.E169G | HNSC | 1 |
p.A590T | SARC | 1 |
p.E437D | STAD | 1 |
p.E310K | HNSC | 1 |
p.Q376H | LUAD | 1 |
p.Q502* | SKCM | 1 |
p.E379K | SKCM | 1 |
p.E466K | READ | 1 |
p.P143L | SKCM | 1 |
p.H96N | LUAD | 1 |
p.A197S | SARC | 1 |
p.E639K | SKCM | 1 |
p.P281H | STAD | 1 |
p.G478E | SKCM | 1 |
p.T63M | LUAD | 1 |
p.Q256X | SKCM | 1 |
p.K586N | THYM | 1 |
p.G192R | LUSC | 1 |
p.R258X | SKCM | 1 |
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TissGeneCNV for CHGB |
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) |
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TissGeneFusions for CHGB |
Fusion genes including TissGene (ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01) |
Database | Src | Cancer type | Sample | Fusion gene | ORF | 5'-gene BP | 3'-gene BP |
Chimerdb3.0 | ChiTaRs | NA | BC042679 | MON2-CHGB | chr12:62926331 | chr20:5904344 | |
Chimerdb3.0 | ChiTaRs | NA | DA012276 | CHGB-CYP17A1 | chr20:5904341 | chr10:104596821 | |
Chimerdb3.0 | TopHat-Fusion | PCPG | TCGA-QT-A7U0-01A | INS-IGF2-CHGB | 3'UTR-5'UTR | chr11:2160396 | chr20:5903346 |
Chimerdb3.0 | TopHat-Fusion | PCPG | TCGA-QR-A6GU-01A | CHGA-CHGB | 3'UTR-CDS | chr14:93401261 | chr20:5903429 |
Chimerdb3.0 | TopHat-Fusion | PCPG | TCGA-QR-A70H-01A | PCBD2-CHGB | Out-of-Frame | chr5:134262993 | chr20:5903897 |
Chimerdb3.0 | TopHat-Fusion | PCPG | TCGA-QR-A70H-01A | PCBD2-CHGB | Out-of-Frame | chr5:134264007 | chr20:5903876 |
Chimerdb3.0 | TopHat-Fusion | PCPG | TCGA-RW-A688-01A | PCBD2-CHGB | Out-of-Frame | chr5:134263441 | chr20:5903925 |
Chimerdb3.0 | TopHat-Fusion | PCPG | TCGA-RW-A688-01A | PCBD2-CHGB | Out-of-Frame | chr5:134264007 | chr20:5903876 |
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TissGeneNet for CHGB |
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) |
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TissGeneProg for CHGB |
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. |
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. |
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. |
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. |
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TissGeneClin for CHGB |
TissGeneDrug for CHGB |
Drug information targeting TissGene (DrugBank Version 5.0.6, 2017-04-01) |
DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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TissGeneDisease for CHGB |
Disease information associated with TissGene (DisGeNet, 2016-06-01) |
Disease ID | Disease name | # pubmeds | Source |
umls:C0002736 | Amyotrophic Lateral Sclerosis | 5 | BeFree,LHGDN |
umls:C0032000 | Pituitary Adenoma | 3 | BeFree |
umls:C0032002 | Pituitary Diseases | 3 | BeFree |
umls:C0036341 | Schizophrenia | 3 | BeFree,GAD,LHGDN |
umls:C0020538 | Hypertensive disease | 2 | GAD,LHGDN |
umls:C0027627 | Neoplasm Metastasis | 2 | BeFree |
umls:C0027819 | Neuroblastoma | 2 | BeFree |
umls:C0029925 | Ovarian Carcinoma | 2 | BeFree |
umls:C0153594 | Malignant neoplasm of testis | 2 | BeFree |
umls:C1140680 | Malignant neoplasm of ovary | 2 | BeFree |
umls:C0002395 | Alzheimer's Disease | 1 | LHGDN |
umls:C0006142 | Malignant neoplasm of breast | 1 | BeFree |
umls:C0007222 | Cardiovascular Diseases | 1 | BeFree |
umls:C0018801 | Heart failure | 1 | BeFree |
umls:C0018802 | Congestive heart failure | 1 | BeFree |
umls:C0020217 | Hydatidiform Mole | 1 | BeFree |
umls:C0022336 | Creutzfeldt-Jakob disease | 1 | LHGDN |
umls:C0023434 | Chronic Lymphocytic Leukemia | 1 | BeFree |
umls:C0023467 | Leukemia, Myelocytic, Acute | 1 | BeFree |
umls:C0031511 | Pheochromocytoma | 1 | BeFree |
umls:C0032019 | Pituitary Neoplasms | 1 | BeFree |
umls:C0178874 | Tumor Progression | 1 | BeFree |
umls:C0221765 | Chronic schizophrenia | 1 | BeFree |
umls:C0278601 | Inflammatory Breast Carcinoma | 1 | BeFree |
umls:C0334634 | Malignant lymphoma, lymphocytic, intermediate differentiation, diffuse | 1 | BeFree |
umls:C0677886 | Epithelial ovarian cancer | 1 | BeFree |
umls:C0678222 | Breast Carcinoma | 1 | BeFree |
umls:C0700095 | Central neuroblastoma | 1 | BeFree |
umls:C1335302 | Pancreatic Ductal Adenocarcinoma | 1 | BeFree |
umls:C1709286 | Null Cell Pituitary Gland Adenoma | 1 | BeFree |