|
Phenotypic Information (metabolism pathway, cancer, disease, phenome) | |
Gene-Gene Network Information: Co-Expression Network, Interacting Genes & KEGG | |
Gene Summary for MARS2 |
Basic gene info. | Gene symbol | MARS2 |
Gene name | methionyl-tRNA synthetase 2, mitochondrial | |
Synonyms | MetRS|mtMetRS | |
Cytomap | UCSC genome browser: 2q33.1 | |
Genomic location | chr2 :198570027-198573114 | |
Type of gene | protein-coding | |
RefGenes | NM_138395.3, | |
Ensembl id | ENSG00000247626 | |
Description | methionine tRNA ligase 2, mitochondrialmethionine--tRNA ligase 2methionine--tRNA ligase, mitochondrialmethionine-tRNA synthetase 2, mitochondrial | |
Modification date | 20141207 | |
dbXrefs | MIM : 609728 | |
HGNC : HGNC | ||
Ensembl : ENSG00000247626 | ||
HPRD : 14363 | ||
Vega : OTTHUMG00000154487 | ||
Protein | UniProt: go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_MARS2 | |
BioGPS: 92935 | ||
Gene Expression Atlas: ENSG00000247626 | ||
The Human Protein Atlas: ENSG00000247626 | ||
Pathway | NCI Pathway Interaction Database: MARS2 | |
KEGG: MARS2 | ||
REACTOME: MARS2 | ||
ConsensusPathDB | ||
Pathway Commons: MARS2 | ||
Metabolism | MetaCyc: MARS2 | |
HUMANCyc: MARS2 | ||
Regulation | Ensembl's Regulation: ENSG00000247626 | |
miRBase: chr2 :198,570,027-198,573,114 | ||
TargetScan: NM_138395 | ||
cisRED: ENSG00000247626 | ||
Context | iHOP: MARS2 | |
cancer metabolism search in PubMed: MARS2 | ||
UCL Cancer Institute: MARS2 | ||
Assigned class in ccmGDB | C |
Top |
Phenotypic Information for MARS2(metabolism pathway, cancer, disease, phenome) |
Cancer Description | |
Cancer | CGAP: MARS2 |
Familial Cancer Database: MARS2 |
* This gene is included in those cancer gene databases. |
Oncogene 1 | Significant driver gene in |
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/ |
Metabolic Pathway Description | |
KEGG_SELENOAMINO_ACID_METABOLISM |
Others | |
OMIM | |
Orphanet | |
Disease | KEGG Disease: MARS2 |
MedGen: MARS2 (Human Medical Genetics with Condition) | |
ClinVar: MARS2 | |
Phenotype | MGI: MARS2 (International Mouse Phenotyping Consortium) |
PhenomicDB: MARS2 |
Mutations for MARS2 |
* 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. |
Structural Variants in COSMIC: go to COSMIC mutation histogram |
- Statistics for Tissue and Mutation type | Top |
- 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'. |
Sample | Symbol_a | Chr_a | Start_a | End_a | Symbol_b | Chr_b | Start_b | End_b |
ovary | MARS2 | chr2 | 198571882 | 198571902 | chr2 | 198576224 | 198576244 | |
ovary | MARS2 | chr2 | 198572000 | 198572020 | chr2 | 198564793 | 198564813 | |
ovary | MARS2 | chr2 | 198572001 | 198572021 | chr2 | 198564793 | 198564813 |
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) |
Related fusion transcripts : go to Chitars2.0 |
* From mRNA Sanger sequences, Chitars2.0 arranged chimeric transcripts. This table shows MARS2 related fusion information. |
ID | Head Gene | Tail Gene | Accession | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a | Gene_a | qStart_a | qEnd_a | Chromosome_a | tStart_a | tEnd_a |
Other DBs for Structural Variants |
Top |
Copy Number Variations in COSMIC: go to COSMIC mutation CNV/Expr |
There's no copy number variation information in COSMIC data for this gene. |
Top |
SNV Counts per Each Loci in COSMIC data: go to COSMIC point mutation |
|
Top |
Somatic Mutation Counts per Tissue in COSMIC data |
Stat. for Non-Synonymous SNVs (# total SNVs=34) | (# total SNVs=20) |
(# total SNVs=0) | (# total SNVs=1) |
Top |
Top 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 position | Mutation(aa) | Unique sampleID count |
chr2:198570300-198570300 | p.A57A | 3 |
chr2:198571903-198571903 | p.R592W | 2 |
chr2:198571112-198571112 | p.G328D | 2 |
chr2:198571020-198571020 | p.F297F | 2 |
chr2:198571775-198571775 | p.G549V | 2 |
chr2:198570870-198570870 | p.D247D | 1 |
chr2:198571601-198571601 | p.A491V | 1 |
chr2:198571099-198571099 | p.L324M | 1 |
chr2:198570227-198570227 | p.S33F | 1 |
chr2:198571355-198571355 | p.R409Q | 1 |
Top |
SNV Counts per Each Loci in TCGA data |
|
Point Mutation/ Tissue ID | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 |
# sample |   | 1 | 1 | 6 | 1 |   | 5 |   | 4 | 1 |   | 12 | 2 | 3 |   | 1 | 4 | 3 | 1 | 6 |
# mutation |   | 1 | 1 | 7 | 1 |   | 5 |   | 4 | 1 |   | 12 | 2 | 3 |   | 1 | 4 | 3 | 1 | 7 |
nonsynonymous SNV |   |   | 1 | 5 |   |   | 3 |   | 3 | 1 |   | 9 |   | 3 |   | 1 | 4 | 2 | 1 | 4 |
synonymous SNV |   | 1 |   | 2 | 1 |   | 2 |   | 1 |   |   | 3 | 2 |   |   |   |   | 1 |   | 3 |
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 |
Top 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 Position | Mutation(aa) | Unique sampleID count |
chr2:198571112 | p.F297F | 2 |
chr2:198571571 | p.R481Q | 2 |
chr2:198571020 | p.G328D | 2 |
chr2:198571775 | p.G549V | 2 |
chr2:198570720 | p.L197L | 2 |
chr2:198571055 | p.D271Y | 1 |
chr2:198571363 | p.A412T | 1 |
chr2:198570234 | p.S35S | 1 |
chr2:198571806 | p.S418C | 1 |
chr2:198570761 | p.I51T | 1 |
Other DBs for Point Mutations |
Copy Number for MARS2 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 MARS2 |
Gene 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. |
Differential 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 |
CNV vs Gene Expression Plot |
* This plots show the correlation between CNV and gene expression. |
Top |
Gene-Gene Network Information |
Co-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 |
ASNSD1,COA7,DDX21,GTF3C3,HSPD1,LRPPRC,MARS2, MOB4,NOLC1,NOP58,PNO1,POLR1B,PRPF40A,PUS7, RQCD1,SF3B1,URB2,WDR12,WDR43,WDR75,ZC3H15 | BEND3,DSC2,FAM60A,LARS,MARS2,MCM4,MTMR1, NKRF,NOLC1,PAICS,POLR1B,PPAT,QTRTD1,SLC12A2, SMARCC1,SRPK1,SSX2IP,TEX10,URB2,USP10,ZBED4 | ||||
C2orf47,CEBPZ,DDX18,FASTKD1,FASTKD2,HSPD1,LRPPRC, MARS2,METTL8,MRPL19,MRPL30,MTIF2,NOC3L,PNO1, PNPT1,POLR1B,PTCD3,SCLY,WDR12,WDR43,WDR75 | AEN,AGPAT5,BYSL,FAM210A,FUT4,GRPEL1,KCNN4, MARS2,MECOM,PDE12,PIGW,PPIF,PUS1,RCL1, RDH13,RRP1,SEH1L,SLC25A19,TAF5L,URB2,UTP15 |
Co-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 |
Top |
Interacting Genes (from Pathway Commons) |
Top |
Pharmacological Information for MARS2 |
Cross-referenced pharmacological DB IDs from Uniprot |
DB Category | DB Name | DB's ID and Url link |
Drug-Gene Interaction Network |
* Gene Centered Interaction Network. |
* Drug Centered Interaction Network. |
DrugBank ID | Target Name | Drug Groups | Generic Name | Drug Centered Network | Drug Structure |
DB00145 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | Glycine | ||
DB00160 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Alanine | ||
DB00125 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Arginine | ||
DB00151 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Cysteine | ||
DB00130 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical; investigational | L-Glutamine | ||
DB00117 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Histidine | ||
DB00149 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Leucine | ||
DB00123 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Lysine | ||
DB00134 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Methionine | ||
DB00120 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Phenylalanine | ||
DB00133 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Serine | ||
DB00156 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Threonine | ||
DB00150 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Tryptophan | ||
DB00135 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Tyrosine | ||
DB00161 | methionyl-tRNA synthetase 2, mitochondrial | approved; nutraceutical | L-Valine |
Top |
Cross referenced IDs for MARS2 |
* We obtained these cross-references from Uniprot database. It covers 150 different DBs, 18 categories. http://www.uniprot.org/help/cross_references_section |
Copyright © 2016-Present - The Univsersity of Texas Health Science Center at Houston @ |