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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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TissGeneSummary

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TissGeneExp

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TissGene-miRNA

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TissGeneMut: TissGeneSNV, TissGeneCNV, and TissGeneFusions

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TissGeneNet

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TissGeneProg

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TissGeneClin: TissGeneDrug and TissGeneDisease

TissGeneSummary for SLC25A18
check button Gene summary
Basic gene informationGene symbolSLC25A18
Gene namesolute carrier family 25 (glutamate carrier), member 18
SynonymsGC2
CytomapUCSC genome browser: 22q11.2
Type of geneprotein-coding
RefGenesNM_031481.1,
DescriptionGC-2glutamate/H(+) symporter 2mitochondrial glutamate carrier 2solute carrier family 25 (mitochondrial carrier), member 18solute carrier family 25 member 18
Modification date20141207
dbXrefs MIM : 609303
HGNC : HGNC
Ensembl : ENSG00000182902
HPRD : 15355
Vega : OTTHUMG00000150089
ProteinUniProt:
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SLC25A18
BioGPS: 83733
PathwayNCI Pathway Interaction Database: SLC25A18
KEGG: SLC25A18
REACTOME: SLC25A18
Pathway Commons: SLC25A18
ContextiHOP: SLC25A18
ligand binding site mutation search in PubMed: SLC25A18
UCL Cancer Institute: SLC25A18
Assigned class in TissGDB*C
Included tissue-specific gene expression resourcesTiGER,GTEx
Specific-tissues in normal samples (assigned by TissGDB using HPA, TiGER, and GTEx)Liver
Cancer types related to the specific-tissues in cancer samples (assigned by TissGDB using TCGA)LIHC
Reference showing the relevant tissue of SLC25A18
Description by TissGene annotations
* Class A consists of genes with literature evidence and is part of the cTissGenes. Class B consists of only cTissGenes without additional evidence. The remaining genes belong to Class C.

check button Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO termPubMed ID


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TissGeneExp for SLC25A18

check button Gene expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
gene exp


check button Gene isoform expressions across 28 cancer types (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA pan-cancer tcga_rsem_isoform_tpm, version 2016-09-01)
gene isoform exp


check button Gene expressions across normal tissues of GTEx data
(GTEx GTEx_Analysis_v6_RNA-seq_RNA-SeQCv1.1.8_gene_rpkm.gct)
- Here, we shows the matched tissue types only among our 28 cancer types.
normal gene exp


check button Different expressions across 14 cancer types with more than 10 samples between matched tumors and normals (X-axis: cancer type and Y-axis: log2(norm_counts+1))
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
DEG exp

- Significantly differentially expressed cancer types and information. (|Fold change|>1 and FDR<0.05)
Cancer typeMean(exp) in tumorMean(exp) in matched normalLog2FCP-val.FDR
LIHC5.0495222646.793280264-1.7437586.63E-062.91E-05
BRCA-0.3815936661.536046685-1.9176403511.64E-191.12E-18
ESCA-1.0779444640.267628264-1.3455727270.005520.04233269


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TissGene-miRNA for SLC25A18

check button Significantly anti-correlated miRNAs of TissGene across 28 cancer types
(Gene-miRNA relations from TargetScanHuman Relsease 7.1, Conserved_Site_Context_Scores.txt.zip, 06.01.2016)
(TCGA IlluminaHiSeq_miRNASeq, log2(RPM+1) data, version 2016-11-21)
(TCGA IlluminaHiSeq_RNASeqV2, log2(normalized_count+1) data, version 2016-08-16)
(Spearman’s Rank Correlation (p-value<0.05 and coefficient<-0.25))
Cancer typemiRNA idmiRNA accessionP-val.Coeff.# samples


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TissGeneMut for SLC25A18
TissGeneSNV for SLC25A18

check button nsSNV counts per each loci.
Different colors of circles represent different cancer types. Circle size denotes number of samples.
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)

* Click on the image to enlarge it in a new window.
SNV lollipop
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check button Somatic nucleotide variants of TissGene across 28 cancer types
(X-axis: cancer type and Y-axis: % of mutated samples)
The numbers in parentheses are numbers of samples with mutation (nsSNVs).
(TCGA somatic mutation (SNPs and small INDELs) data, version 2016-04-25)
SNV distribution

- nsSNVs sorted by frequency.
AAchangeCancer type# samples
p.M125ISARC1
p.A284THNSC1
p.V118MLIHC1
p.G285DSKCM1
p.G228CUCEC1
p.G60SSKCM1
p.H223YUCEC1
p.R163HUCEC1
p.R90GLUAD1
p.T55MSKCM1
p.R248QCOAD1
p.R91WLUSC1
p.D87NSKCM1
p.E214KSKCM1
p.R175HUCEC1
p.R309HBRCA1
p.Q141ECESC1
p.C110*LUAD1
p.G217SBRCA1
p.R66QLUSC1
p.G113ESKCM1
p.R57WUCS1
p.R57QSKCM1
p.V117ILGG1
p.A219TSTAD1
p.L182FLUAD1
p.G113RSKCM1
p.R309HSTAD1
p.A205VLUSC1
p.Q39XESCA1
p.G285SSKCM1
p.E172QACC1
p.E214KBLCA1
p.S165CBRCA1
p.L36MLUAD1
p.D315NUCEC1
p.W272XSKCM1
p.L174FLUAD1
p.Q39*ESCA1
p.A238TUCEC1
p.W272*SKCM1
p.D87NCOAD1


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TissGeneCNV for SLC25A18

check button Copy number variations of TissGene across 28 cancer types (X-axis: cancer type and Y-axis: % of CNV samples)
(TCGA Gistic2_CopyNumber_Gistic2_all_data_by_genes, Gistic2 copy number data, version 2016-08-16)
CNV


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TissGeneFusions for SLC25A18

check button Fusion genes including TissGene
(ChimerDB 3.0, 2016-12-01 and TCGA fusion Portal 2015-12-01)
DatabaseSrcCancer typeSampleFusion geneORF5'-gene BP3'-gene BP
TCGAfusionPortalPRADALUADTCGA-05-4426-01AMICAL3-SLC25A185UTR-CDSChr22:18507047Chr22:18069902


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TissGeneNet for SLC25A18

check button Co-expressed gene networks based on protein-protein interaction data (CePIN)
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(PINA2 ppi data)
BRCA (tumor)BRCA (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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COAD (tumor)COAD (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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HNSC (tumor)HNSC (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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KICH (tumor)KICH (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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KIRC (tumor)KIRC (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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KIRP (tumor)KIRP (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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LIHC (tumor)LIHC (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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LUAD (tumor)LUAD (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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LUSC (tumor)LUSC (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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PRAD (tumor)PRAD (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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STAD (tumor)STAD (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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THCA (tumor)THCA (normal)
SLC25A18, HNF4A, ICT1 (tumor)SLC25A18, HNF4A, ICT1 (normal)
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TissGeneProg for SLC25A18

check button Kaplan-Meier plots with logrank tests of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image to enlarge it in a new window.
survival 1

check button Kaplan-Meier plots with logrank test of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 2

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of overall survival (OS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 3

check button Forest plot of Cox proportional hazard ratio (HR) and 95% CI of relapse free survival (RFS) using 28 cancer types
(TCGA IlluminaHiSeq_RNASeqV2, pan-cancer normalized log2(norm_counts+1) data, version 2016-08-16)
(TCGA clinicalMatrix, phenotype data, version 2016-04-27)

* Click on the image enlarge it in a new window.
survival 4

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TissGeneClin for SLC25A18
TissGeneDrug for SLC25A18

check button Drug information targeting TissGene
(DrugBank Version 5.0.6, 2017-04-01)
DrugBank IDDrug nameDrug activityDrug typeDrug status


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TissGeneDisease for SLC25A18

check button Disease information associated with TissGene
(DisGeNet, 2016-06-01)
Disease IDDisease name# pubmedsSource
umls:C0007134Renal Cell Carcinoma2BeFree
umls:C0600139Prostate carcinoma1BeFree