Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

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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 GLUL
Basic gene info.Gene symbolGLUL
Gene nameglutamate-ammonia ligase
SynonymsGLNS|GS|PIG43|PIG59
CytomapUCSC genome browser: 1q31
Genomic locationchr1 :182350838-182361341
Type of geneprotein-coding
RefGenesNM_001033044.2,
NM_001033056.2,NM_002065.5,
Ensembl idENSG00000135821
Descriptioncell proliferation-inducing protein 59glutamate decarboxylaseglutamate--ammonia ligaseglutamine synthaseglutamine synthetaseproliferation-inducing protein 43
Modification date20141207
dbXrefs MIM : 138290
HGNC : HGNC
Ensembl : ENSG00000135821
HPRD : 00701
Vega : OTTHUMG00000037407
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_GLUL
BioGPS: 2752
Gene Expression Atlas: ENSG00000135821
The Human Protein Atlas: ENSG00000135821
PathwayNCI Pathway Interaction Database: GLUL
KEGG: GLUL
REACTOME: GLUL
ConsensusPathDB
Pathway Commons: GLUL
MetabolismMetaCyc: GLUL
HUMANCyc: GLUL
RegulationEnsembl's Regulation: ENSG00000135821
miRBase: chr1 :182,350,838-182,361,341
TargetScan: NM_001033044
cisRED: ENSG00000135821
ContextiHOP: GLUL
cancer metabolism search in PubMed: GLUL
UCL Cancer Institute: GLUL
Assigned class in ccmGDBC

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Phenotypic Information for GLUL(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: GLUL
Familial Cancer Database: GLUL
* 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
KEGG_ALANINE_ASPARTATE_AND_GLUTAMATE_METABOLISM
KEGG_ARGININE_AND_PROLINE_METABOLISM
KEGG_NITROGEN_METABOLISM
REACTOME_METABOLISM_OF_AMINO_ACIDS_AND_DERIVATIVES

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

Mutations for GLUL
* 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 GLUL related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AW352004GLUL273181182355437182357735GLUL3083931182353773182353858
CB322028MTIF21718625546375655463925GLUL1826361182353606182354693
DA275818WDR741102116260918062609281GLUL1035671182353265182353729
BF988852GLUL11451182353060182353204GLUL1372441182352944182353051
BE765952GLUL2781182352479182352556SLC24A27614991950922019509293
AV650942SERP113993150299506150301991GLUL3895981182353126182353336
AA581184GLUL1621182352164182352225GLUL581661182352045182352153
AW579277PROS1123739367872793678963GLUL2312941182353484182353547
BF932728RUFY18655178993286178993345GLUL582371182358989182359169
BE765994GLUL1751182352482182352556SLC24A27414891950922019509294
W27933GLUL402141182352976182353150GLUL2063611182357785182360867
BF925573GRAMD3234025125827042125827422GLUL3884811182352164182352256
AW168573ART318047694227376942352GLUL741341182352031182352091

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=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=13)
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
chr1:182356326-182356326p.R90C2
chr1:182356408-182356408p.F62F2
chr1:182354926-182354926p.A191V2
chr1:182353655-182353655p.Y336C2
chr1:182356278-182356278p.R106*2
chr1:182353683-182353683p.R327W1
chr1:182356292-182356292p.V101D1
chr1:182357869-182357869p.T2P1
chr1:182353785-182353785p.G293S1
chr1:182353564-182353564p.D366D1

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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
# sample 1 71 1 11 5411 36 7
# mutation 1 61 1 11 5411 37 9
nonsynonymous SNV   41 1 11 241  26 5
synonymous SNV 1 2       3  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
chr1:182353767p.A191V,GLUL2
chr1:182354926p.R299C,GLUL2
chr1:182353701p.N152N,GLUL1
chr1:182354634p.G293S,GLUL1
chr1:182353567p.W149G,GLUL1
chr1:182355457p.D289H,GLUL1
chr1:182353702p.Y137H,GLUL1
chr1:182354903p.G365G,GLUL1
chr1:182353584p.H281H,GLUL1
chr1:182355522p.H115L,GLUL1

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 GLUL 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 GLUL

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

ABAT,C1orf27,KIAA0825,CD46,COG2,FAM63A,GLUL,
HHAT,HNRNPH2,KIAA0040,LRG1,MAPT,MR1,NEK10,
NEK11,RALGPS2,RCOR3,RUNDC1,SLC30A1,TOR1AIP1,XBP1
ACSM2A,ACSM2B,ALDH1L1,ASS1,IZUMO4,APMAP,CALCRL,
CYP1A2,ECHDC3,GLUL,GLYCTK,HRSP12,MOCS1,MOGAT1,
NTSR2,PC,PMM1,RASL10B,SHMT1,TCEB3,TMEM120A

ABCB4,ARNT,C1orf198,C1orf85,CYB5R1,GLP1R,GLUL,
KIAA0087,LEFTY1,LOC92973,MR1,NCSTN,OR13J1,PBXIP1,
PI4KB,RNASEL,RPLP0P2,SLAMF6,STX6,TMEM204,WDR26
APCDD1,BCAT1,CD3EAP,CP,EIF2AK4,FAM107A,FKBP5,
GLUL,IRAK3,JPH1,LONRF1,LSM11,MRGPRX2,MUSK,
PAPPA2,SCNN1G,SLC7A2,TBC1D8,VIT,VSIG8,ZBTB16
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 GLUL
check002.gifCross-referenced pharmacological DB IDs from Uniprot
DB CategoryDB NameDB's ID and Url link

check002.gifDrug-Gene Interaction Network
* Gene Centered Interaction Network.
* Drug Centered Interaction Network.
DrugBank IDTarget NameDrug GroupsGeneric NameDrug Centered NetworkDrug Structure
DB02663glutamate-ammonia ligaseexperimental2-Amino-4-(Hydroxymethyl-Phosphinyl)Butanoic Acid
DB03431glutamate-ammonia ligaseexperimentalAdenosine-5'-Diphosphate
DB00130glutamate-ammonia ligaseapproved; nutraceutical; investigationalL-Glutamine
DB00142glutamate-ammonia ligaseapproved; nutraceuticalL-Glutamic Acid


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Cross referenced IDs for GLUL
* 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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