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Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for CGB |
Basic gene info. | Gene symbol | CGB |
Gene name | chorionic gonadotropin, beta polypeptide | |
Synonyms | CGB3|CGB5|CGB7|CGB8|hCGB | |
Cytomap | UCSC genome browser: 19q13.32 | |
Genomic location | chr19 :49526125-49527632 | |
Type of gene | protein-coding | |
RefGenes | NM_000737.3, | |
Ensembl id | ENSG00000104827 | |
Description | CG-betachoriogonadotropin subunit betachorionic gonadotrophin chain betachorionic gonadotropin beta 3 subunitchorionic gonadotropin beta chainchorionic gonadotropin beta subunit | |
Modification date | 20141222 | |
dbXrefs | MIM : 118860 | |
HGNC : HGNC | ||
Ensembl : ENSG00000104827 | ||
HPRD : 00343 | ||
Vega : OTTHUMG00000180605 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_CGB | |
BioGPS: 1082 | ||
Gene Expression Atlas: ENSG00000104827 | ||
The Human Protein Atlas: ENSG00000104827 | ||
Pathway | NCI Pathway Interaction Database: CGB | |
KEGG: CGB | ||
REACTOME: CGB | ||
ConsensusPathDB | ||
Pathway Commons: CGB | ||
Metabolism | MetaCyc: CGB | |
HUMANCyc: CGB | ||
Regulation | Ensembl's Regulation: ENSG00000104827 | |
miRBase: chr19 :49,526,125-49,527,632 | ||
TargetScan: NM_000737 | ||
cisRED: ENSG00000104827 | ||
Context | iHOP: CGB | |
cancer metabolism search in PubMed: CGB | ||
UCL Cancer Institute: CGB | ||
Assigned class in ccmGDB | C |
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Phenotypic Information for CGB(metabolism pathway, cancer, disease, phenome) |
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Cancer | CGAP: CGB |
Familial Cancer Database: CGB |
* This gene is included in those cancer gene databases. |
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Oncogene 1 | Significant driver gene in |
cf) number; DB name 1 Oncogene; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 2 Tumor Suppressor gene; https://bioinfo.uth.edu/TSGene/, 3 Cancer Gene Census; http://www.nature.com/nrc/journal/v4/n3/abs/nrc1299.html, 4 CancerGenes; http://nar.oxfordjournals.org/content/35/suppl_1/D721.long, 5 Network of Cancer Gene; http://ncg.kcl.ac.uk/index.php, 1Therapeutic Vulnerabilities in Cancer; http://cbio.mskcc.org/cancergenomics/statius/ |
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REACTOME_METABOLISM_OF_AMINO_ACIDS_AND_DERIVATIVES |
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OMIM | |
Orphanet | |
Disease | KEGG Disease: CGB |
MedGen: CGB (Human Medical Genetics with Condition) | |
ClinVar: CGB | |
Phenotype | MGI: CGB (International Mouse Phenotyping Consortium) |
PhenomicDB: CGB |
Mutations for CGB |
* Under tables are showing count per each tissue to give us broad intuition about tissue specific mutation patterns.You can go to the detailed page for each mutation database's web site. |
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There's no structural variation information in COSMIC data for this gene. |
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* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows CGB related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
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There's no copy number variation information in COSMIC data for this gene. |
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Stat. for Non-Synonymous SNVs (# total SNVs=2) | (# total SNVs=2) |
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(# total SNVs=1) | (# total SNVs=0) |
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* When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site,primary_histology,mutation(aa),pubmedID. |
GRCh37 position | Mutation(aa) | Unique sampleID count |
chr19:49526180-49526180 | p.L154P | 1 |
chr19:49526203-49526203 | p.P146P | 1 |
chr19:49526209-49526209 | p.S147fs*>19 | 1 |
chr19:49526242-49526242 | p.P133P | 1 |
chr19:49526297-49526297 | p.R115H | 1 |
chr19:49527216-49527216 | p.Q5* | 1 |
chr19:49526155-49526155 | p.I162I | 1 |
chr19:49526167-49526167 | p.S158S | 1 |
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Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   | 1 |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   | 1 |   |   | 1 |
# mutation |   | 1 |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   | 1 |   |   | 1 |
nonsynonymous SNV |   |   |   |   |   |   |   |   | 1 |   |   |   |   |   |   |   |   |   |   | 1 |
synonymous SNV |   | 1 |   |   |   |   |   |   |   |   |   |   |   |   |   |   | 1 |   |   |   |
cf) Tissue ID; Tissue type (1; BLCA[Bladder Urothelial Carcinoma], 2; BRCA[Breast invasive carcinoma], 3; CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], 4; COAD[Colon adenocarcinoma], 5; GBM[Glioblastoma multiforme], 6; Glioma Low Grade, 7; HNSC[Head and Neck squamous cell carcinoma], 8; KICH[Kidney Chromophobe], 9; KIRC[Kidney renal clear cell carcinoma], 10; KIRP[Kidney renal papillary cell carcinoma], 11; LAML[Acute Myeloid Leukemia], 12; LUAD[Lung adenocarcinoma], 13; LUSC[Lung squamous cell carcinoma], 14; OV[Ovarian serous cystadenocarcinoma ], 15; PAAD[Pancreatic adenocarcinoma], 16; PRAD[Prostate adenocarcinoma], 17; SKCM[Skin Cutaneous Melanoma], 18:STAD[Stomach adenocarcinoma], 19:THCA[Thyroid carcinoma], 20:UCEC[Uterine Corpus Endometrial Carcinoma]) |
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* We represented just top 10 SNVs. When you move the cursor on each content, you can see more deailed mutation information on the Tooltip. Those are primary_site, primary_histology, mutation(aa), pubmedID. |
Genomic Position | Mutation(aa) | Unique sampleID count |
chr19:49526242 | p.R115H | 1 |
chr19:49526297 | p.I162I | 1 |
chr19:49526155 | p.L154P | 1 |
chr19:49526180 | p.P133P | 1 |
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* Copy number data were extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered on Jan-05-2015. Function ProcessCNAData in TCGA-Assembler package was used to obtain gene-level copy number value which is calculated as the average copy number of the genomic region of a gene. |
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cf) Tissue ID[Tissue type]: BLCA[Bladder Urothelial Carcinoma], BRCA[Breast invasive carcinoma], CESC[Cervical squamous cell carcinoma and endocervical adenocarcinoma], COAD[Colon adenocarcinoma], GBM[Glioblastoma multiforme], Glioma Low Grade, HNSC[Head and Neck squamous cell carcinoma], KICH[Kidney Chromophobe], KIRC[Kidney renal clear cell carcinoma], KIRP[Kidney renal papillary cell carcinoma], LAML[Acute Myeloid Leukemia], LUAD[Lung adenocarcinoma], LUSC[Lung squamous cell carcinoma], OV[Ovarian serous cystadenocarcinoma ], PAAD[Pancreatic adenocarcinoma], PRAD[Prostate adenocarcinoma], SKCM[Skin Cutaneous Melanoma], STAD[Stomach adenocarcinoma], THCA[Thyroid carcinoma], UCEC[Uterine Corpus Endometrial Carcinoma] |
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Gene Expression for CGB |
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* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data. |
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* Normalized gene expression data of RNASeqV2 was extracted from TCGA using R package TCGA-Assembler. The URLs of all public data files on TCGA DCC data server were gathered at Jan-05-2015. Only eight cancer types have enough normal control samples for differential expression analysis. (t test, adjusted p<0.05 (using Benjamini-Hochberg FDR)) |
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* This plots show the correlation between CNV and gene expression. |
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Gene-Gene Network Information |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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CGB,CGB1,CGB5,CGB8,FAM47C,FFAR2,GCG, GSDMB,INS,LOC727924,LINC00052,OR4M2,OR4N2,OR4N3P, OR4N4,OR4Q3,PWAR4___F2RL3___PAWR,PPY,SNORD115-26,TEX28,TTR | FOXL2NB,FAM167A-AS1,CDRT15P1,CGB8,CHRNA6,DCT,FAM71B, GUCA1C,HSFY1P1,IQCF3,KRTAP10-2,LOC144742,MKRN3,NKX6-2, OR2A2,OR52B2,OR52E4,OR6S1,PRAMEF4,SEZ6L,SNORD115-26 | ||||
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ABLIM3,AHNAK2,ARL4C,BEAN,CD1C,CD1E,CGB, CGB5,CGB7,CGB8,DCBLD2,FIGLA,KCNA7,LAMC2, LOC100216001,NAV3,RPSAP52,SCEL,SEMA7A,SUSD2,ZBED2 | C10orf113,CCDC70,CGB8,CSAG2,DEFB119,DMP1,FAM47A, FKSG83,GKN1,HOXC13,KRT3,LOC284379,OR52L1,OR52N1, PATE3,SCGB1D1,SNORA77,TBC1D28,TRIM29,TTTY9B,TYR |
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* Co-Expression network figures were drawn using R package igraph. Only the top 20 genes with the highest correlations were shown. Red circle: input gene, orange circle: cell metabolism gene, sky circle: other gene |
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Pharmacological Information for CGB |
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DB Category | DB Name | DB's ID and Url link |
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* Gene Centered Interaction Network. |
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* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB01033 | chorionic gonadotropin, beta polypeptide | approved | Mercaptopurine | ![]() | ![]() |
DB00563 | chorionic gonadotropin, beta polypeptide | approved | Methotrexate | ![]() | ![]() |
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Cross referenced IDs for CGB |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
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