Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

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 GNG4
Basic gene info.Gene symbolGNG4
Gene nameguanine nucleotide binding protein (G protein), gamma 4
Synonyms-
CytomapUCSC genome browser: 1q42.3
Genomic locationchr1 :235710984-235813293
Type of geneprotein-coding
RefGenesNM_001098721.1,
NM_001098722.1,NM_004485.3,
Ensembl idENSG00000168243
Descriptionguanine nucleotide binding protein 4guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-4
Modification date20141207
dbXrefs MIM : 604388
HGNC : HGNC
Ensembl : ENSG00000168243
HPRD : 11978
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GNG4
BioGPS: 2786
Gene Expression Atlas: ENSG00000168243
The Human Protein Atlas: ENSG00000168243
PathwayNCI Pathway Interaction Database: GNG4
KEGG: GNG4
REACTOME: GNG4
ConsensusPathDB
Pathway Commons: GNG4
MetabolismMetaCyc: GNG4
HUMANCyc: GNG4
RegulationEnsembl's Regulation: ENSG00000168243
miRBase: chr1 :235,710,984-235,813,293
TargetScan: NM_001098721
cisRED: ENSG00000168243
ContextiHOP: GNG4
cancer metabolism search in PubMed: GNG4
UCL Cancer Institute: GNG4
Assigned class in ccmGDBC

Top
Phenotypic Information for GNG4(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GNG4
Familial Cancer Database: GNG4
* 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: GNG4
MedGen: GNG4 (Human Medical Genetics with Condition)
ClinVar: GNG4
PhenotypeMGI: GNG4 (International Mouse Phenotyping Consortium)
PhenomicDB: GNG4

Mutations for GNG4
* 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

- Statistics for Tissue and Mutation typeTop
- For Inter-chromosomal Variations
* Inter-chromosomal variantions includes 'interchromosomal amplicon to amplicon', 'interchromosomal amplicon to non-amplified dna', 'interchromosomal insertion', 'Interchromosomal unknown type'.
- For Intra-chromosomal Variations
* Intra-chromosomal variantions includes 'intrachromosomal amplicon to amplicon', 'intrachromosomal amplicon to non-amplified dna', 'intrachromosomal deletion', 'intrachromosomal fold-back inversion', 'intrachromosomal inversion', 'intrachromosomal tandem duplication', 'Intrachromosomal unknown type', 'intrachromosomal with inverted orientation', 'intrachromosomal with non-inverted orientation'.
SampleSymbol_aChr_aStart_aEnd_aSymbol_bChr_bStart_bEnd_b
large_intestineGNG4chr1235721067235721067chr332985933298593
large_intestineGNG4chr1235796032235796032ZFP2chr5178346281178346281
ovaryGNG4chr1235730555235730575GNG4chr1235730802235730822
cf) Tissue number; Tissue name (1;Breast, 2;Central_nervous_system, 3;Haematopoietic_and_lymphoid_tissue, 4;Large_intestine, 5;Liver, 6;Lung, 7;Ovary, 8;Pancreas, 9;Prostate, 10;Skin, 11;Soft_tissue, 12;Upper_aerodigestive_tract)

check002.gifRelated fusion transcripts : go to Chitars2.0
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows GNG4 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AW888605GNG414711235714929235714990SORBS166143109707273797072814
AW880094LOC1005074121148?117701117739GNG447701235806442235806465
AV747616ATF6B185634680113468095GNG4864111235714207235714533
AA743558GNG41211235801786235801806PSMD1013335X107327444107327765

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

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample4             1  
GAIN (# sample)4             1  
LOSS (# sample)                 
cf) Tissue ID; Tissue type (1; Breast, 2; Central_nervous_system, 3; Cervix, 4; Endometrium, 5; Haematopoietic_and_lymphoid_tissue, 6; Kidney, 7; Large_intestine, 8; Liver, 9; Lung, 10; NS, 11; Ovary, 12; Pancreas, 13; Prostate, 14; Skin, 15; Stomach, 16; Thyroid, 17; Urinary_tract)

Top
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=6

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=11)
Stat. for Synonymous SNVs
(# total SNVs=3)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.There's no inserted snv.

Top
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
chr1:235715441-235715441p.R66C4
chr1:235747067-235747067p.K24N2
chr1:235715489-235715489p.R50R2
chr1:235715446-235715446p.P64L1
chr1:235747078-235747078p.E21K1
chr1:235715474-235715474p.I55V1
chr1:235747095-235747095p.Q15R1
chr1:235747123-235747123p.S6P1
chr1:235715492-235715492p.V49L1
chr1:235747136-235747136p.M1I1

Top
check002.gifSNV Counts per Each Loci in TCGA data

 : non-synonymous mutation, : synonymous mutation, Circle size denotes number of samples.
maximum mutation count=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample3  4       22   31 6
# mutation4  4       22   31 6
nonsynonymous SNV4  2       12   21 5
synonymous SNV   2       1    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])

Top
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
chr1:235715441p.R66C,GNG42
chr1:235715489p.R50R,GNG42
chr1:235747056p.C28F,GNG42
chr1:235747067p.E21K,GNG41
chr1:235747078p.T73A,GNG41
chr1:235715446p.Q15R,GNG41
chr1:235747095p.E67E,GNG41
chr1:235715474p.S6P,GNG41
chr1:235747123p.R66R,GNG41
chr1:235747136p.M1I,GNG41

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 GNG4 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]

Top
Gene Expression for GNG4

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))
Top
check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


Top
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

ACTL6B,AP3B2,APLP1,BRSK2,BSN,CHRNB2,GNG4,
HCN2,KCNH2,UNC79,LRRC16B,LRTM2,MAST1,OGDHL,
PSD,RAB34___RAB39A,RUNDC3A,SCG3,SYP,TMEM145,UNC13A
ASCL2,C11orf85,C2orf50,CPA6,FADS6,GATA5,GLYATL3,
GNG4,KCNF1,KRTAP10-10,MCHR1,MYT1,NTSR1,PRSS1,
PSCA,SPANXA2,SPANXC,SPANXD,ABHD11-AS1,WNT3A,ZNF716

ADNP,GID8,SPATA25,FAM217B,AAR2,RTFDC1,DDX27,
DPM1,GNG4,TTI1,LOC646762,MOCS3,PCMTD2,PIGU,
POFUT1,PPP1R3D,RPRD1B,TAF4,TP53RK,YTHDF1,ZSWIM3
APOD,ATOH8,BCAM,CCDC184,CCDC3,CGNL1,CRABP1,
CSRP2,CYP4B1,EFHD1,TMEM255A,GALNT15,GNG4,GPX3,
IRX6,LOC148824,MYOC,NPTX2,PTH1R,RERGL,RHOBTB1
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

Top
check002.gifInteracting Genes (from Pathway Commons)

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

Top
Pharmacological Information for GNG4


There's no related Drug.
Top
Cross referenced IDs for GNG4
* 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



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas