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 GNAO1
Basic gene info.Gene symbolGNAO1
Gene nameguanine nucleotide binding protein (G protein), alpha activating activity polypeptide O
SynonymsEIEE17|G-ALPHA-o|GNAO
CytomapUCSC genome browser: 16q13
Genomic locationchr16 :56225250-56382111
Type of geneprotein-coding
RefGenesNM_020988.2,
NM_138736.2,
Ensembl idENSG00000087258
Descriptionguanine nucleotide-binding protein G(o) subunit alpha
Modification date20141207
dbXrefs MIM : 139311
HGNC : HGNC
Ensembl : ENSG00000087258
HPRD : 00757
Vega : OTTHUMG00000133241
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GNAO1
BioGPS: 2775
Gene Expression Atlas: ENSG00000087258
The Human Protein Atlas: ENSG00000087258
PathwayNCI Pathway Interaction Database: GNAO1
KEGG: GNAO1
REACTOME: GNAO1
ConsensusPathDB
Pathway Commons: GNAO1
MetabolismMetaCyc: GNAO1
HUMANCyc: GNAO1
RegulationEnsembl's Regulation: ENSG00000087258
miRBase: chr16 :56,225,250-56,382,111
TargetScan: NM_020988
cisRED: ENSG00000087258
ContextiHOP: GNAO1
cancer metabolism search in PubMed: GNAO1
UCL Cancer Institute: GNAO1
Assigned class in ccmGDBC

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Phenotypic Information for GNAO1(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GNAO1
Familial Cancer Database: GNAO1
* 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: GNAO1
MedGen: GNAO1 (Human Medical Genetics with Condition)
ClinVar: GNAO1
PhenotypeMGI: GNAO1 (International Mouse Phenotyping Consortium)
PhenomicDB: GNAO1

Mutations for GNAO1
* 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
There's no inter-chromosomal structural variation.
- 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
breastGNAO1chr165623264756232647GNAO1chr165625290056252900
large_intestineGNAO1chr165631251456312514chr167970350579703505
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 GNAO1 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
DB344809FBRSL116412133160815133160878GNAO159550165637447856377743
DA491290ZNF7111126X8449899784499122GNAO1125553165622570256226130
BF362557TBC1D527431778062617780698GNAO171328165637856756378824
AW014453GNAO11161165639019956390249GNAO154393165638996356390302
M78823GNAO1189165639077756390865FAM81A83441155973252459732880

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
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample      1          
GAIN (# sample)                 
LOSS (# sample)      1          
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)

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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=3

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=33)
Stat. for Synonymous SNVs
(# total SNVs=17)
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
chr16:56388797-56388797p.D299D3
chr16:56388909-56388909p.D337H3
chr16:56362664-56362664p.N142S2
chr16:56370728-56370728p.A227T2
chr16:56362673-56362673p.R145Q2
chr16:56388841-56388841p.S314L2
chr16:56370655-56370655p.V202V2
chr16:56385325-56385325p.F251F2
chr16:56370674-56370674p.R209C2
chr16:56226182-56226182p.A12V1

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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=2

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample33 111 2 1  9  1131 10
# mutation33 111 2 1  8  1131 11
nonsynonymous SNV12 91 2 1  2   12  7
synonymous SNV21 2       6  1 11 4
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
chr16:56385325p.D299D2
chr16:56388797p.D337N2
chr16:56374870p.P283Q2
chr16:56370656p.F251F2
chr16:56388909p.G203R,GNAO12
chr16:56226231p.L274L1
chr16:56388945p.K70T,GNAO11
chr16:56362638p.E217K,GNAO11
chr16:56370728p.R86Q,GNAO11
chr16:56226258p.E217E,GNAO11

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 GNAO1 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 GNAO1

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

APLP1,BSN,CPLX2,DISP2,DKFZP434H168,AMER3,GNAO1,
UNC79,LOC283856,MAPK8IP1,PHF21B,PSD,PTPRN2,RUNDC3A,
SNAP25,SPTBN4,SYN1,SYP,SYT4,TMEM145,UNC13A
C11orf94,FOXL2NB,CDSN,COL4A6,CWH43,CYP4F22,FOXD4L6,
FOXL2,GNAO1,HS6ST2,KLK2,LOC283856,LPHN3,NETO2,
NRK,OR52W1,RAP1GDS1,SCRG1,UPK3A,WIF1,ZNF689

ASB2,CAND2,CLIP3,GNAO1,GPM6A,GRIK5,HSPB8,
KIAA2022,LDB3,LMOD1,LONRF2,LRCH2,MAB21L2,MAP6,
MYH11,MYLK,MYOCD,PDZRN4,REEP2,SPEG,TCEAL2
ATP2B4,CACNA1C,CACNA1H,DMD,FRMPD4,GNAO1,GRIK5,
ITGA7,KCNB1,KCNMA1,MRVI1,MYH11,TENM3___TENM1,PPP1R12B,
PRUNE2,PTGS1,SPEG,SVIL,TACR2,TNS1,TSPAN18
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 GNAO1


There's no related Drug.
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Cross referenced IDs for GNAO1
* 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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