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 SLC25A2
Basic gene info.Gene symbolSLC25A2
Gene namesolute carrier family 25 (mitochondrial carrier; ornithine transporter) member 2
SynonymsORC2|ORNT2
CytomapUCSC genome browser: 5q31
Genomic locationchr5 :140682195-140683612
Type of geneprotein-coding
RefGenesNM_031947.2,
Ensembl idENSG00000120329
Descriptionmitochondrial ornithine transporter 2ornithine transporter 2solute carrier family 25 member 2
Modification date20141207
dbXrefs MIM : 608157
HGNC : HGNC
Ensembl : ENSG00000120329
HPRD : 12180
Vega : OTTHUMG00000129604
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SLC25A2
BioGPS: 83884
Gene Expression Atlas: ENSG00000120329
The Human Protein Atlas: ENSG00000120329
PathwayNCI Pathway Interaction Database: SLC25A2
KEGG: SLC25A2
REACTOME: SLC25A2
ConsensusPathDB
Pathway Commons: SLC25A2
MetabolismMetaCyc: SLC25A2
HUMANCyc: SLC25A2
RegulationEnsembl's Regulation: ENSG00000120329
miRBase: chr5 :140,682,195-140,683,612
TargetScan: NM_031947
cisRED: ENSG00000120329
ContextiHOP: SLC25A2
cancer metabolism search in PubMed: SLC25A2
UCL Cancer Institute: SLC25A2
Assigned class in ccmGDBC

Top
Phenotypic Information for SLC25A2(metabolism pathway, cancer, disease, phenome)
check002.gifCancer Description
Cancer CGAP: SLC25A2
Familial Cancer Database: SLC25A2
* 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_AMINO_ACIDS_AND_DERIVATIVES

check002.gifOthers
OMIM
Orphanet
DiseaseKEGG Disease: SLC25A2
MedGen: SLC25A2 (Human Medical Genetics with Condition)
ClinVar: SLC25A2
PhenotypeMGI: SLC25A2 (International Mouse Phenotyping Consortium)
PhenomicDB: SLC25A2

Mutations for SLC25A2
* 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 SLC25A2 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
There's no copy number variation information in COSMIC data for this gene.

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=4

Top
check002.gifSomatic Mutation Counts per Tissue in COSMIC data
Stat. for Non-Synonymous SNVs
(# total SNVs=48)
Stat. for Synonymous SNVs
(# total SNVs=11)
Stat. for Deletions
(# total SNVs=2)
Stat. for Insertions
(# total SNVs=3)

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
chr5:140683389-140683389p.A15V4
chr5:140683342-140683342p.D31N3
chr5:140683302-140683303p.Y44fs*13
chr5:140683204-140683204p.E77K2
chr5:140682884-140682884p.G183G2
chr5:140683343-140683343p.F30F2
chr5:140682677-140682677p.T252T2
chr5:140683268-140683268p.Y55Y2
chr5:140682711-140682711p.S241F2
chr5:140683317-140683317p.T39M2

Top
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
# sample32 81 1 21 611 179 8
# mutation32 81 1 21 721 1910 11
nonsynonymous SNV22 6    1  621 169 10
synonymous SNV1  21 1 11 1    31 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])

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
chr5:140683343p.F30F3
chr5:140683389p.A15V3
chr5:140683317p.T39M2
chr5:140683342p.D31N2
chr5:140682678p.M293L1
chr5:140683267p.G220G1
chr5:140682832p.G97V1
chr5:140683405p.P29P1
chr5:140682556p.K292N1
chr5:140683143p.L212S1

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 SLC25A2 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 SLC25A2

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

ANKS4B,BAZ1A,LINC01559,PCNXL4,CHD8,CTAGE5,DTWD2,
FANCM,LINC01184,GRIN2B,KIAA0391,MIPOL1,PAX9,POLE2,
RALGAPA1,RDH11,REG4,SLC25A21,TRAPPC6B,TTLL5,ZNF253
ARMC1,NADK2,DCTN4,FAM120C,FAM47E,FBXO9,FRS2,
MBTPS2,NRIP1,NT5DC1,PLA2G12A,RAB18,RAD21,TRMT10A,
RHOT1,RNF170,SENP2,ARHGEF26,SLC25A21,SRPK2,UBE2W

ANXA13,CA8,CIB4,CIT,CKAP4,FAM174B,GALNT8,
KIF19,MAK,MIPOL1,OPRD1,PCSK1,RAP1GAP,RHBDL3,
SLAIN1,SLC25A21,SLC26A9,SPINK4,SSTR1,STXBP1,UGT2B4
ARL4D,C16orf45,CAB39L,CES1,CFL2,FBXO17,MORN5,
MSRB3,MXRA7,NT5DC3,NUDT10,NUDT11,PDLIM3,PDLIM4,
PTPLA,RASL12,RASSF8,SLC25A21,SOX15,ST3GAL3,TSPAN2
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 SLC25A2
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
DB00129solute carrier family 25 (mitochondrial carrier; ornithine transporter) member 2approved; nutraceuticalL-Ornithine


Top
Cross referenced IDs for SLC25A2
* 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