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 GNA14
Basic gene info.Gene symbolGNA14
Gene nameguanine nucleotide binding protein (G protein), alpha 14
Synonyms-
CytomapUCSC genome browser: 9q21
Genomic locationchr9 :80037994-80263232
Type of geneprotein-coding
RefGenesNM_004297.3,
Ensembl idENSG00000156049
DescriptionG-protein subunit alpha-14g alpha-14guanine nucleotide-binding protein 14guanine nucleotide-binding protein subunit alpha-14
Modification date20141207
dbXrefs MIM : 604397
HGNC : HGNC
Ensembl : ENSG00000156049
HPRD : 05095
Vega : OTTHUMG00000020058
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GNA14
BioGPS: 9630
Gene Expression Atlas: ENSG00000156049
The Human Protein Atlas: ENSG00000156049
PathwayNCI Pathway Interaction Database: GNA14
KEGG: GNA14
REACTOME: GNA14
ConsensusPathDB
Pathway Commons: GNA14
MetabolismMetaCyc: GNA14
HUMANCyc: GNA14
RegulationEnsembl's Regulation: ENSG00000156049
miRBase: chr9 :80,037,994-80,263,232
TargetScan: NM_004297
cisRED: ENSG00000156049
ContextiHOP: GNA14
cancer metabolism search in PubMed: GNA14
UCL Cancer Institute: GNA14
Assigned class in ccmGDBC

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Phenotypic Information for GNA14(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GNA14
Familial Cancer Database: GNA14
* 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: GNA14
MedGen: GNA14 (Human Medical Genetics with Condition)
ClinVar: GNA14
PhenotypeMGI: GNA14 (International Mouse Phenotyping Consortium)
PhenomicDB: GNA14

Mutations for GNA14
* 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
breastGNA14chr98013557680135576chr9102364203102364203
ovaryGNA14chr98005427980054299GNA14chr98005592180055941
pancreasGNA14chr98014726580147285MIR548H3chr97832093578320955
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 GNA14 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AV645432SDS130812113830583113830890GNA1430936298013663980136692

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 # sample11 2    1        
GAIN (# sample) 1 1             
LOSS (# sample)1  1    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=5

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=37)
Stat. for Synonymous SNVs
(# total SNVs=7)
Stat. for Deletions
(# total SNVs=0)
Stat. for Insertions
(# total SNVs=0)
There's no deleted snv.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
chr9:80046341-80046341p.I163I3
chr9:80043929-80043929p.R206Q3
chr9:80039059-80039059p.R302*3
chr9:80144078-80144078p.T72T2
chr9:80038963-80038963p.R334C2
chr9:80038966-80038966p.I333V2
chr9:80049290-80049290p.A153V2
chr9:80046280-80046280p.G184S2
chr9:80039058-80039058p.R302K2
chr9:80144029-80144029p.A89S2

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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=5

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample23 15    1  331  75 7
# mutation33 12    1  331  65 8
nonsynonymous SNV21 10    1  231  43 8
synonymous SNV12 2       1    22  
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
chr9:80144078p.R302K2
chr9:80049380p.R302G2
chr9:80043929p.E123G2
chr9:80046280p.A89T2
chr9:80039058p.R206Q2
chr9:80039059p.G184S2
chr9:80046301p.T72T2
chr9:80144029p.R177C2
chr9:80049306p.R334C1
chr9:80040628p.S167L1

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 GNA14 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 GNA14

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

ATG16L1,KIAA0825,C9orf152,C9orf91,CORO2A,ELF1,EPB41L4A,
FOXP1,GNA14,GOLGA2,KIAA1324,KIAA1377,RNF103,SEC16A,
SLC19A2,TMEM87B,TOX3,TRAK2,YPEL2,ZNF100,ZNF484
ABCD2,ALG9,ANO3,BCAP29,TMEM230,CAV2,CLVS1,
FGF13,FZD4,GLDN,GNA14,GYPE,HNMT,PPP2R1B,
PPP2R5A,RFTN1,RTN3,SAR1A,SGK2,SPATA9,TMEM135

APBA1,BCAS1,BMP2,SMIM14,CAMK2D,CAPN9,CCNJL,
CREB3L1,FAM174B,FCGBP,FHL2,GNA14,GNAQ,GNE,
KCNA6,KLF4,LOC100129034,LRRIQ4,MLPH,NPDC1,SEC16A
AGR2,ARF4,ASRGL1,TMEM263,DCPS,DNAJC10,DNAJC12,
ERP27,GNA14,IFI16,IL19,ITLN1,KDELR3,NUCB2,
PLA2G2A,PRSS22,S100P,SLC16A14,SLC6A14,SPINK5,TMEM173
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 GNA14


There's no related Drug.
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Cross referenced IDs for GNA14
* 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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