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 ARG2
Basic gene info.Gene symbolARG2
Gene namearginase 2
Synonyms-
CytomapUCSC genome browser: 14q24.1
Genomic locationchr14 :68086578-68118436
Type of geneprotein-coding
RefGenesNM_001172.3,
Ensembl idENSG00000081181
DescriptionL-arginine amidinohydrolaseL-arginine ureahydrolasearginase, type IIarginase-2, mitochondrialkidney arginasekidney-type arginasenon-hepatic arginasenonhepatic arginasetype II arginase
Modification date20141207
dbXrefs MIM : 107830
HGNC : HGNC
Ensembl : ENSG00000081181
HPRD : 00143
Vega : OTTHUMG00000171807
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_ARG2
BioGPS: 384
Gene Expression Atlas: ENSG00000081181
The Human Protein Atlas: ENSG00000081181
PathwayNCI Pathway Interaction Database: ARG2
KEGG: ARG2
REACTOME: ARG2
ConsensusPathDB
Pathway Commons: ARG2
MetabolismMetaCyc: ARG2
HUMANCyc: ARG2
RegulationEnsembl's Regulation: ENSG00000081181
miRBase: chr14 :68,086,578-68,118,436
TargetScan: NM_001172
cisRED: ENSG00000081181
ContextiHOP: ARG2
cancer metabolism search in PubMed: ARG2
UCL Cancer Institute: ARG2
Assigned class in ccmGDBC

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Phenotypic Information for ARG2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: ARG2
Familial Cancer Database: ARG2
* 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_ARGININE_AND_PROLINE_METABOLISM
REACTOME_METABOLISM_OF_AMINO_ACIDS_AND_DERIVATIVES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: ARG2
MedGen: ARG2 (Human Medical Genetics with Condition)
ClinVar: ARG2
PhenotypeMGI: ARG2 (International Mouse Phenotyping Consortium)
PhenomicDB: ARG2

Mutations for ARG2
* 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 ARG2 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a
AI656563EMILIN11317622730910827309271ARG2166346146811688668117066

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=4

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check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=14)
Stat. for Synonymous SNVs
(# total SNVs=6)
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
chr14:68086727-68086727p.L11L4
chr14:68112441-68112441p.I148I2
chr14:68113628-68113628p.?1
chr14:68109014-68109014p.L99P1
chr14:68113681-68113681p.D221Y1
chr14:68086712-68086712p.S6S1
chr14:68109067-68109069p.G117delG1
chr14:68114822-68114822p.P261S1
chr14:68112428-68112428p.A144V1
chr14:68114862-68114862p.R274Q1

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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
# sample22 5  2 1      121 4
# mutation22 5  2 1      121 4
nonsynonymous SNV11 4  1        11  3
synonymous SNV11 1  1 1       11 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
chr14:68086727p.L11L2
chr14:68112518p.K174T1
chr14:68086712p.F181L1
chr14:68113381p.A191P1
chr14:68113409p.D221Y1
chr14:68086765p.P261S1
chr14:68113681p.R274Q1
chr14:68086772p.S6S1
chr14:68114822p.E282K1
chr14:68087661p.G287G1

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 ARG2 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 ARG2

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

ARG2,CCDC169,MROH9,ABRACL,LINC00588,CENPW,CHAC2,
CSN3,EIF2S1,EML4,IVNS1ABP,KCNMB2,PIK3CA,PPP2R5C,
PRAMEF5,PRAMEF9,RDH11,REPS1,SNAPC1,TRIM49D2,TRIM53AP
ANO6,ARG2,AZI2,CAT,GPATCH11,COL4A3BP,DDHD2,
EIF4EBP2,FBXL5,GHR,MTMR10,OXCT1,PCYOX1,PDE3B,
PEX19,PTPLB,RHOBTB3,SIK2,SLC25A16,SORT1,TRHDE

ALKBH1,ARG2,CHRNA1,CLGN,DHRS4L1,ENAM,FAM184B,
FGF23,GABRA2,KCTD4,PCDHA10,PCK2,PGAM4,PSMC1,
RDH11,SNORA1,SNORA25,SNORA32,SOX3,TBPL2,TUBA4B
ARG2,C1orf105,TMEM252,CYP2C9,FLVCR1,GBA3,SLC52A1,
HOXC8,HOXC9,MEP1B,NAT8B,OTC,PEPD,PTGR1,
SLC23A1,SLC2A9,SLC6A4,SULT1E1,SULT2B1,AGMO,TMEM229A
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 ARG2
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
DB00125arginase 2approved; nutraceuticalL-Arginine
DB00129arginase 2approved; nutraceuticalL-Ornithine
DB03731arginase 2experimentalS-2-(Boronoethyl)-L-Cysteine


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Cross referenced IDs for ARG2
* 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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