Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

Gene Summary

Phenotypic Information (metabolism pathway, cancer, disease, phenome)

Mutations: SVs, CNVs, SNVs

Gene expression: GE, Protein, DEGE, CNV vs GE

Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG

Pharmacological Information: Drug-Gene Network

Cross referenced IDs

Gene Summary for GNG11
Basic gene info.Gene symbolGNG11
Gene nameguanine nucleotide binding protein (G protein), gamma 11
SynonymsGNGT11
CytomapUCSC genome browser: 7q21
Genomic locationchr7 :93551015-93555826
Type of geneprotein-coding
RefGenesNM_004126.3,
Ensembl idENSG00000127920
DescriptionG protein gamma-11 subunitguanine nucleotide-binding protein G(I)/G(S)/G(O) gamma-11 subunitguanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-11
Modification date20141207
dbXrefs MIM : 604390
HGNC : HGNC
HPRD : 11979
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GNG11
BioGPS: 2791
Gene Expression Atlas: ENSG00000127920
The Human Protein Atlas: ENSG00000127920
PathwayNCI Pathway Interaction Database: GNG11
KEGG: GNG11
REACTOME: GNG11
ConsensusPathDB
Pathway Commons: GNG11
MetabolismMetaCyc: GNG11
HUMANCyc: GNG11
RegulationEnsembl's Regulation: ENSG00000127920
miRBase: chr7 :93,551,015-93,555,826
TargetScan: NM_004126
cisRED: ENSG00000127920
ContextiHOP: GNG11
cancer metabolism search in PubMed: GNG11
UCL Cancer Institute: GNG11
Assigned class in ccmGDBC

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Phenotypic Information for GNG11(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GNG11
Familial Cancer Database: GNG11
* This gene is included in those cancer gene databases.

.

Oncogene 1

Tumor Suppressor gene 2

Cancer Gene Census 3

CancerGenes 4

Network of Cancer Gene 5

Significant driver gene in

Therapeutic Vulnerabilities in Cancer1

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/

check002.gifMetabolic Pathway Description
REACTOME_INTEGRATION_OF_ENERGY_METABOLISM

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: GNG11
MedGen: GNG11 (Human Medical Genetics with Condition)
ClinVar: GNG11
PhenotypeMGI: GNG11 (International Mouse Phenotyping Consortium)
PhenomicDB: GNG11

Mutations for GNG11
* 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.

check002.gifStructural Variants in COSMIC: go to COSMIC mutation histogram
There's no structural variation information in COSMIC data for this gene.

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows GNG11 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

check002.gifOther DBs for Structural Variants
Structural Variants in Ensembl: go to Ensembl Structural variation
Structural Variants in dbVar: go to dbVar

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check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
There's no copy number variation information in COSMIC data for this gene.

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check002.gifSNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation

 : Non-synonymous mutation, : Synonymous mutation, Circle size denotes number of samples.
Maximum mutation count=2

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=16)
Stat. for Synonymous SNVs
(# total SNVs=1)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

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check002.gifTop 10 SNVs Having the Most Samples in COSMIC data
* 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 positionMutation(aa)Unique sampleID count
chr7:93555449-93555449p.S48Y2
chr7:93555509-93555509p.G68V1
chr7:93555409-93555409p.K35*1
chr7:93555518-93555518p.V71G1
chr7:93555428-93555428p.K41R1
chr7:93555445-93555445p.R47C1
chr7:93551454-93551454p.P2H1
chr7:93551467-93551467p.I6M1
chr7:93555452-93555452p.G49A1
chr7:93551468-93551468p.E7K1

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check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=1

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample   1  1 1  4 1   1  
# mutation   1  1 1  4 1   1  
nonsynonymous SNV   1  1 1  3     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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check002.gifTop 10 SNVs Having the Most Samples in TCGA data
* 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 PositionMutation(aa)Unique sampleID count
chr7:93555509p.P2H1
chr7:93555527p.K12N1
chr7:93551454p.R23H1
chr7:93551485p.N42I1
chr7:93551517p.E45D1
chr7:93555431p.R47H1
chr7:93555441p.S48Y1
chr7:93555446p.E50E1
chr7:93555449p.G68V1
chr7:93555456p.X74X1

check002.gifOther DBs for Point Mutations
Point Mutation Table of Ensembl: go to Ensembl variation table
Mutation of cBioPortal: go to cBioPortal's Cross-cancer alteration summary

check002.gifCopy Number for GNG11 in TCGA
* 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.
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 GNG11

check002.gifGene Expression in Cancer Cell-lines (CCLE)
* CCLE gene expression data were extracted from CCLE_Expression_Entrez_2012-10-18.res: Gene-centric RMA-normalized mRNA expression data.

check002.gifDifferential Gene Expression in Primary Tumors (TCGA)
* 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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check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


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Gene-Gene Network Information
check002.gifCo-Expressed gene's network Plot
* 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

: Open all plots for all cancer types

ACVRL1,ARHGEF15,CCL14,CD34,CDH5,CLEC14A,CNRIP1,
CXorf36,ECSCR,EMCN,ESAM,GNG11,JAM2,LDB2,
LHFP,LRRC70,MMRN2,MYCT1,PECAM1,ROBO4,TIE1
AIDA,BAALC,CCDC178,CNRIP1,ELTD1,ESAM,GIMAP4,
GNG11,HOXB7,HSD17B11,ICAM2,LDB2,MEOX1,MYCT1,
NRN1,NTAN1,PECAM1,RAMP2,RHOA,RNF130,VIM

ARHGEF15,CALCRL,CD34,CLEC14A,CLEC1A,CNRIP1,CXorf36,
CYYR1,ECSCR,ELTD1,EMCN,GNG11,GUCY1B3,KCNJ8,
LDB2,MMRN2,MYCT1,PECAM1,RAMP2,RAMP3,S1PR1
TMEM237,AP1S2,COPRS,FAM229B,CFAP36,DNAJC24,EID1,
FAM195B,COX20,FAM92A1,FKBP7,GNG11,IGFBP7,LAYN,
MGP,PDE1A,PDGFRL,SCHIP1,TAF9B,TCEAL1,TCEAL7
check002.gifCo-Expressed gene's Protein-protein interaction Network Plot
* 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

: Open all plots for all cancer types

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check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

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Pharmacological Information for GNG11


There's no related Drug.
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Cross referenced IDs for GNG11
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section

: Open all cross reference information



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