Cancer Cell Metabolism Gene Database

  Cancer Cell Metabolism Gene DB

Home

Search

Download

 Statistics

Help

About Us

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 MAT1A
Basic gene info.Gene symbolMAT1A
Gene namemethionine adenosyltransferase I, alpha
SynonymsMAT|MATA1|SAMS|SAMS1
CytomapUCSC genome browser: 10q22
Genomic locationchr10 :82031575-82049434
Type of geneprotein-coding
RefGenesNM_000429.2,
Ensembl idENSG00000151224
DescriptionMAT 1MAT-I/IIIS-adenosylmethionine synthase isoform type-1S-adenosylmethionine synthetase isoform type-1adoMet synthase 1adoMet synthetase 1methionine adenosyltransferase 1methionine adenosyltransferase I/III
Modification date20141207
dbXrefs MIM : 610550
HGNC : HGNC
Ensembl : ENSG00000151224
HPRD : 02013
Vega : OTTHUMG00000018613
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_MAT1A
BioGPS: 4143
Gene Expression Atlas: ENSG00000151224
The Human Protein Atlas: ENSG00000151224
PathwayNCI Pathway Interaction Database: MAT1A
KEGG: MAT1A
REACTOME: MAT1A
ConsensusPathDB
Pathway Commons: MAT1A
MetabolismMetaCyc: MAT1A
HUMANCyc: MAT1A
RegulationEnsembl's Regulation: ENSG00000151224
miRBase: chr10 :82,031,575-82,049,434
TargetScan: NM_000429
cisRED: ENSG00000151224
ContextiHOP: MAT1A
cancer metabolism search in PubMed: MAT1A
UCL Cancer Institute: MAT1A
Assigned class in ccmGDBC

Top
Phenotypic Information for MAT1A(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: MAT1A
Familial Cancer Database: MAT1A
* 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_CYSTEINE_AND_METHIONINE_METABOLISM
KEGG_SELENOAMINO_ACID_METABOLISM
REACTOME_SULFUR_AMINO_ACID_METABOLISM
REACTOME_METABOLISM_OF_AMINO_ACIDS_AND_DERIVATIVES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: MAT1A
MedGen: MAT1A (Human Medical Genetics with Condition)
ClinVar: MAT1A
PhenotypeMGI: MAT1A (International Mouse Phenotyping Consortium)
PhenomicDB: MAT1A

Mutations for MAT1A
* 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 MAT1A 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

Top
check002.gifCopy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr
 
Mutation type/ Tissue IDbrcacnscervendomehaematopokidnLintestliverlungnsovarypancreprostskinstomathyrourina
Total # sample    1            
GAIN (# sample)    1            
LOSS (# sample)                 
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)

Top
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

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=34)
Stat. for Synonymous SNVs
(# total SNVs=20)
Stat. for Deletions
(# total SNVs=1)
Stat. for Insertions
(# total SNVs=0)
There's no inserted snv.

Top
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
chr10:82036269-82036269p.E211K2
chr10:82036311-82036311p.P197S2
chr10:82036321-82036321p.G193G2
chr10:82049104-82049104p.G26R2
chr10:82034333-82034333p.R343Q2
chr10:82039973-82039973p.R169S2
chr10:82034908-82034908p.G272G2
chr10:82040488-82040488p.A118V1
chr10:82034933-82034933p.R264H1
chr10:82036264-82036264p.D212D1

Top
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
# sample31 82 1   172   7619
# mutation31 92 1   172   9619
nonsynonymous SNV21 72 1   141   5313
synonymous SNV1  2       31   43 6
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])

Top
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
chr10:82036321p.D93N2
chr10:82043687p.E211K2
chr10:82034333p.R343Q2
chr10:82036269p.G193G2
chr10:82036311p.S383S1
chr10:82043684p.V241I1
chr10:82033635p.E147E1
chr10:82049168p.Y377C1
chr10:82034908p.V226V1
chr10:82034280p.F139F1

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 MAT1A 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]

Top
Gene Expression for MAT1A

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))
Top
check002.gifCNV vs Gene Expression Plot
* This plots show the correlation between CNV and gene expression.

: Open all plots for all cancer types


Top
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

C12orf29,CFAP54,TSPEAR-AS2,SPATA31E1,CT45A1,CT45A4,FAM47A,
SPATA31C1,FLJ30679,H3F3B,HIST1H2AG,HIST1H3F,HIST1H4I,HMX1,
KHDRBS2,LLPH,LOC93622,MAT1A,NUP107,TRIM36,YEATS4
ARMC9,CCDC157,CDH3,EPHA1,EPS8L1,GRP,ICAM5,
ISYNA1,ITGA3,KCNG1,MAGED4B,MAT1A,NCDN,PLAT,
PODNL1,SERPINA11,SLC9A3R1,SPINT2,SYTL1,TCEAL5,TMEM184A

ALDH1B1,FABP6,GP9,JSRP1,KIAA1257,KRTAP10-4,MAGEA3,
MAGEA6,MAT1A,OR4K17,OXGR1,PCCA,SCN8A,SLC38A11,
TAS2R16,TBXAS1,TCP11,TDGF1,TDGF1P3,TDRD5,TTTY2
ANKRD1,ASB11,C16orf82,LRRC71,CABP1,CCIN,CST6,
CTHRC1,CYP24A1,DRD5,DUSP21,COLGALT1,GSPT2,MAT1A,
MYEOV,PCCB,POPDC3,SLC37A2,SSX8,TANGO6,TMEM211
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

Top
check002.gifInteracting Genes (from Pathway Commons)

: Open all interacting genes' information including KEGG pathway for all interacting genes from DAVID

Top
Pharmacological Information for MAT1A
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
DB00118methionine adenosyltransferase I, alphaapproved; nutraceuticalS-Adenosylmethionine
DB03191methionine adenosyltransferase I, alphaexperimental3-Oxiran-2ylalanine
DB03431methionine adenosyltransferase I, alphaexperimentalAdenosine-5'-Diphosphate
DB03611methionine adenosyltransferase I, alphaexperimentalL-2-Amino-4-Methoxy-Cis-but-3-Enoic Acid


Top
Cross referenced IDs for MAT1A
* 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



Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @
Site Policies | State of Texas