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 MOCS3
Basic gene info.Gene symbolMOCS3
Gene namemolybdenum cofactor synthesis 3
SynonymsUBA4
CytomapUCSC genome browser: 20q13.13
Genomic locationchr20 :49575362-49577820
Type of geneprotein-coding
RefGenesNM_014484.4,
Ensembl idENSG00000124217
DescriptionMPT synthase sulfurylaseUBA4, ubiquitin-activating enzyme E1 homologadenylyltransferase and sulfurtransferase MOCS3molybdenum cofactor synthesis protein 3molybdopterin synthase sulfurylaseubiquitin-like modifier activating enzyme 4
Modification date20141207
dbXrefs MIM : 609277
HGNC : HGNC
HPRD : 10092
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_MOCS3
BioGPS: 27304
Gene Expression Atlas: ENSG00000124217
The Human Protein Atlas: ENSG00000124217
PathwayNCI Pathway Interaction Database: MOCS3
KEGG: MOCS3
REACTOME: MOCS3
ConsensusPathDB
Pathway Commons: MOCS3
MetabolismMetaCyc: MOCS3
HUMANCyc: MOCS3
RegulationEnsembl's Regulation: ENSG00000124217
miRBase: chr20 :49,575,362-49,577,820
TargetScan: NM_014484
cisRED: ENSG00000124217
ContextiHOP: MOCS3
cancer metabolism search in PubMed: MOCS3
UCL Cancer Institute: MOCS3
Assigned class in ccmGDBC

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Phenotypic Information for MOCS3(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: MOCS3
Familial Cancer Database: MOCS3
* 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_METABOLISM_OF_VITAMINS_AND_COFACTORS

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: MOCS3
MedGen: MOCS3 (Human Medical Genetics with Condition)
ClinVar: MOCS3
PhenotypeMGI: MOCS3 (International Mouse Phenotyping Consortium)
PhenomicDB: MOCS3

Mutations for MOCS3
* 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 MOCS3 related fusion information.
IDHead GeneTail Gene
AccessionGene_aqStart_aqEnd_aChromosome_atStart_atEnd_aGene_aqStart_aqEnd_aChromosome_atStart_atEnd_a

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=28)
Stat. for Synonymous SNVs
(# total SNVs=10)
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
chr20:49575823-49575823p.L148L3
chr20:49576222-49576222p.L281L3
chr20:49575979-49575979p.L200L3
chr20:49576473-49576473p.C365F2
chr20:49575847-49575847p.P156P2
chr20:49576279-49576279p.C300C2
chr20:49576335-49576335p.S319*2
chr20:49575933-49575933p.T185I2
chr20:49575512-49575512p.P45S2
chr20:49575798-49575798p.S140L1

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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=3

Point Mutation/ Tissue ID1234567891011121314151617181920
# sample2  63   22 1412  5912
# mutation2  63   22 1412  51112
nonsynonymous SNV1  53   11 9 2  47 2
synonymous SNV1  1    11 51   141 
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
chr20:49576721p.P156P2
chr20:49575532p.T438T2
chr20:49575512p.A448T2
chr20:49575847p.P45T2
chr20:49576693p.P51P2
chr20:49575858p.R62H1
chr20:49576093p.G210D1
chr20:49576391p.D346V1
chr20:49575867p.G105G1
chr20:49576097p.D218G1

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 MOCS3 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 MOCS3

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

ADNP,GID8,AAR2,CSTF1,DIDO1,DPM1,LSM14B,
MOCS3,NCOA6,NFS1,OSBPL2,SLMO2,SPATA2,TAF4,
NELFCD,TP53RK,TRPC4AP,UBE2V1,UQCC1,YTHDF1,ZFP64
RHNO1,GID8,C2orf15,CANT1,CCDC85C,CHMP4C,DKC1,
FAM83H,FANCF,LOC25845,MANEAL,MOCS3,NONO,PARS2,
PATZ1,PGAP2,PLEK2,PRMT5,TMEM177,TRIM27,ZBTB9

ADNP,GID8,AAR2,RTFDC1,CSE1L,CSTF1,DDX27,
DPM1,TTI1,MAPRE1,MOCS3,RAE1,RNF114,RPRD1B,
STAU1,NELFCD,TP53RK,UBE2V1,VAPB,YTHDF1,ZSWIM3
ALKBH7,CCDC71,COX5B,DUSP23,ABHD17A,GRK6,HPS6,
MAN1B1,MOCS3,MRPL41,NDUFAF3,PGLS,PXMP2,RPL28,
SCAND1,SFT2D3,THAP4,TMEM160,TRAPPC1,TRAPPC5,ZNF524
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 MOCS3


There's no related Drug.
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Cross referenced IDs for MOCS3
* 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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