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Center for Computational Systems Medicine
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Gene summary

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Gene structure and Gene expression level

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Sex-biased somatic mutation

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DNA methylation with beta values in gene

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Exon skipping events with PSI in TCGA

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RNA A-to-I editing events in TCGA

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Sex-biased TF-Gene network of gene

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Sex-biased RBP-ES network of gene

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Sex-biased CeRNA regulation of gene

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Sex-biased eQTL regulation of gene

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Sex-biased eQTM regulation of gene

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Sex-biased sQTL regulation of gene

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Sex-biased sQTM regulation of gene

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Related disease information of gene

Gene: ENSG00000044524

Summary for EPHA3

check button Gene summary

Gene informationEnsembl ID

ENSG00000044524

Gene symbol

EPHA3

Gene nameEPH receptor A3
HGNC

3387

Entrez ID

2042

Gene typeprotein_coding
SynonymsEPHA3|HEK|HEK4
UniProtAcc

P29320


check buttonDrugs associated with this gene(DrugBank).
Gene IDGene SymbolDrug IDDrug NameDrug Type
ENSG00000044524EPHA3DB12010FostamatinibSmallMoleculeDrug

check buttonCancer therapeutic drugs associated with this gene(NCI).
Gene IDGene NameDrug IDDrug NameDrug TypeCancer

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Structure and expression level for EPHA3

check buttonAS events and RNA A-to-I editing events of the gene in TCGA based on Genvode V22 structure.
∗For more information on exon skipping events please check the ExonskipDB database.
∗For more information on exon skipping events please check the CAeditome database.
UCSC result

check buttonLandscape of gene expressions across multiple cancer types.
gene expression analysis

check buttonDifferentially expressed gene analysis between tumor male and tumor female samples.
Coding NameBase Meanlog2FoldChangelfcSEStatP valueP.adjust ValueCancer Type

check buttonDifferentially expressed gene analysis between tumor male and normal male samples.
Coding NameBase Meanlog2FoldChangelfcSEStatP valueP.adjust ValueCancer Type

check buttonDifferentially expressed gene analysis between tumor female and normal female samples.
DEG result
Coding NameBase Meanlog2FoldChangelfcSEStatP valueP.adjust ValueCancer Type
EPHA32.36e+02-2.10e+004.81e-01-4.37e+001.25e-057.91e-05READ

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Sex-biased somatic mutation for EPHA3

∗For more information on exon skipping events please check the ExonskipDB database.
Gene IDCancer TypeHugo SymbolMaleFemalepvalorci.upci.lowadjPval

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DNA methylation with beta values for EPHA3

check buttonLandscape of DNA methylation across multiple cancer types.
methylation heatmap

check buttonDifferentially expressed CpG sites between male tumor and female tumor patients.
Cancer TypeCpG SitePositionCpG IslandPosition to Geneave1ave2wilcoxon.wwilcoxon.ppadjdBeta
BRCAcg10315231chr3:89107418CGI:chr3:89114485-89114957promoter7.40e-021.85e-01-2.41e+001.61e-023.22e-02-1.11e-01

check buttonDifferentially expressed CpG sites between male tumor and male normal patients.
Cancer TypeCpG SitePositionCpG IslandPosition to Geneave1ave2wilcoxon.wwilcoxon.ppadjdBeta

check buttonDifferentially expressed CpG sites between female tumor and female normal patients.
Cancer TypeCpG SitePositionCpG IslandPosition to Geneave1ave2wilcoxon.wwilcoxon.ppadjdBeta
BRCAcg16797972chr3:89106921CGI:chr3:89114485-89114957promoter3.56e-016.67e-01-1.03e+018.46e-257.05e-24-3.11e-01
LUADcg16797972chr3:89106921CGI:chr3:89114485-89114957promoter4.60e-016.09e-01-2.15e+003.17e-023.60e-02-1.49e-01
HNSCcg18055394chr3:89107328CGI:chr3:89114485-89114957promoter3.35e-011.98e-012.57e+001.02e-021.88e-021.37e-01
COADcg05676541chr3:89107526CGI:chr3:89114485-89114957UTR,promoter,exon,gene body1.87e-013.18e-022.14e+003.27e-023.69e-021.55e-01
LIHCcg01360628chr3:89106968CGI:chr3:89114485-89114957promoter5.73e-017.18e-013.78e+001.59e-045.46e-04-1.45e-01

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Exon skipping events with PSI in TCGA for EPHA3

∗Please access ExonSkipDB for exon skipping annotation.
check buttonDifferentially expressed exon skipping events between male tumor and female tumor patients.
Cancer TypeExon Skippingave.female_Tave.female_Nwilcoxon.wwilcoxon.ppadjdPSI

check buttonDifferentially expressed exon skipping events between male tumor and male normal patients.
Cancer TypeExon Skippingave.female_Tave.female_Nwilcoxon.wwilcoxon.ppadjdPSI

check buttonDifferentially expressed exon skipping events between female tumor and female normal patients.
Cancer TypeExon Skippingave.female_Tave.female_Nwilcoxon.wwilcoxon.ppadjdPSI

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RNA A-to-I editing events in TCGA for EPHA3

∗Please access CAeditome for RNA editing annotation.
check buttonDifferentially expressed RNA editing events between male tumor and female tumor patients.
Cancer TypeTranscriptEditingave.male_Tave.female_Twilcoxon.wwilcoxon.pp_adjdFre

check buttonDifferentially expressed RNA editing events between male tumor and male normal patients.
Cancer TypeTranscriptEditingave.male_Tave.female_Twilcoxon.wwilcoxon.pp_adjdFre

check buttonDifferentially expressed RNA editing events between female tumor and female normal patients.
Cancer TypeTranscriptEditingave.male_Tave.female_Twilcoxon.wwilcoxon.pp_adjdFre

check buttonProtein coding RNA editing(s).
Editing PositionVariant TypeGene SymbolTranscript IDNTchangeAAchange

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Sex-biased TF-Gene network for EPHA3

check buttonTFs related to EPHA3.
∗The female-biased TF-gene edges were identified if Female_Edge_threshold>0.98 and Male_Edge_threshold<=0.98.
∗The male-biased TF-gene edges were identified if Male_Edge_threshold>0.98 and Female_Edge_threshold<=0.98.
TF Gene
Cancer TypeTFTarget GeneMale Edge ScoreMale Edge ThresholdFemale Edge ScoreFemale Edge ThresholdType
ACCNKX6-1EPHA33.65e+005.22e-034.65e+009.91e-01Female-biased
ACCPOU3F3EPHA34.04e+001.20e-024.83e+009.85e-01Female-biased
ACCZNF418EPHA32.67e+002.10e-033.86e+009.83e-01Female-biased
BLCANKX6-1EPHA34.31e+001.50e-025.06e+009.82e-01Female-biased
BLCAPOU3F3EPHA34.73e+001.46e-025.49e+009.84e-01Female-biased
BLCAZNF418EPHA32.66e+001.55e-033.97e+009.81e-01Female-biased
CHOLZNF418EPHA33.95e+006.48e-035.00e+009.91e-01Female-biased
DLBCEMX1EPHA36.17e+009.92e-015.22e+007.34e-03Male-biased
DLBCEMX2EPHA35.98e+009.94e-014.97e+005.64e-03Male-biased
DLBCFOXD3EPHA35.36e+009.96e-014.03e+001.74e-03Male-biased
DLBCKLF17EPHA32.72e+002.84e-033.95e+009.81e-01Female-biased
DLBCMYNNEPHA35.23e+009.95e-014.01e+002.58e-03Male-biased
DLBCNANOGEPHA35.41e+009.95e-014.27e+003.46e-03Male-biased
DLBCNFAT5EPHA35.19e+009.90e-014.25e+007.54e-03Male-biased
DLBCNKX6-1EPHA35.46e+009.98e-013.77e+005.04e-04Male-biased
DLBCPOU2F2EPHA35.61e+009.96e-014.40e+002.70e-03Male-biased
DLBCPOU3F3EPHA35.69e+009.98e-014.18e+009.22e-04Male-biased
DLBCPOU6F1EPHA36.31e+009.88e-015.48e+001.12e-02Male-biased
DLBCRESTEPHA33.20e+004.13e-034.34e+009.87e-01Female-biased
DLBCZBTB42EPHA33.67e+008.84e-034.60e+009.85e-01Female-biased
DLBCZNF141EPHA32.42e+008.75e-043.99e+009.84e-01Female-biased
DLBCZNF317EPHA35.64e+009.92e-014.69e+007.11e-03Male-biased
DLBCZNF354AEPHA35.87e+009.97e-014.59e+002.10e-03Male-biased
DLBCZNF354BEPHA35.74e+009.95e-014.62e+003.74e-03Male-biased
DLBCZNF418EPHA35.03e+009.97e-012.51e+004.56e-05Male-biased
LGGFOXD3EPHA35.18e+009.82e-014.79e+001.58e-02Male-biased
LGGNKX6-1EPHA35.21e+009.85e-014.78e+001.28e-02Male-biased
MESOPOU3F3EPHA34.77e+009.84e-013.59e+001.11e-02Male-biased
PAADZNF418EPHA35.24e+009.88e-014.40e+009.89e-03Male-biased
READEMX1EPHA35.26e+009.45e-036.11e+009.90e-01Female-biased
READEMX2EPHA34.93e+005.06e-035.95e+009.94e-01Female-biased
READFOXD3EPHA33.60e+005.47e-045.26e+009.97e-01Female-biased
READGTF3AEPHA35.08e+009.96e-013.66e+001.05e-03Male-biased
READKLF12EPHA34.99e+009.96e-013.58e+001.05e-03Male-biased
READKLF17EPHA35.14e+009.97e-013.21e+001.61e-04Male-biased
READLIN28BEPHA36.27e+009.83e-015.56e+001.62e-02Male-biased
READMYNNEPHA33.66e+001.23e-035.06e+009.96e-01Female-biased
READNANOGEPHA34.20e+003.36e-035.33e+009.95e-01Female-biased
READNFAT5EPHA34.39e+001.00e-025.23e+009.88e-01Female-biased
READNKX6-1EPHA33.26e+003.62e-045.04e+009.97e-01Female-biased
READNR1H3EPHA34.77e+009.93e-013.49e+001.67e-03Male-biased
READPOU2F2EPHA34.29e+001.70e-035.61e+009.97e-01Female-biased
READPOU3F3EPHA33.81e+004.07e-045.56e+009.98e-01Female-biased
READPOU6F1EPHA35.31e+009.26e-036.16e+009.90e-01Female-biased
READRELAEPHA35.24e+009.94e-014.12e+003.19e-03Male-biased
READRESTEPHA34.98e+009.96e-013.43e+006.19e-04Male-biased
READRREB1EPHA34.31e+009.88e-012.90e+001.00e-03Male-biased
READSALL4EPHA34.19e+009.86e-012.56e+004.36e-04Male-biased
READZBTB42EPHA35.39e+009.97e-013.97e+001.04e-03Male-biased
READZNF141EPHA34.85e+009.96e-012.82e+001.02e-04Male-biased
READZNF317EPHA34.70e+006.68e-035.63e+009.92e-01Female-biased
READZNF322EPHA34.57e+009.93e-012.80e+002.82e-04Male-biased
READZNF354AEPHA34.30e+001.42e-035.67e+009.97e-01Female-biased
READZNF354BEPHA34.38e+001.43e-035.75e+009.97e-01Female-biased
READZNF418EPHA38.44e-011.92e-064.18e+009.88e-01Female-biased
READZNF713EPHA34.62e+001.21e-025.40e+009.86e-01Female-biased
READZNF749EPHA35.27e+009.95e-014.13e+002.92e-03Male-biased
READZNF783EPHA34.70e+009.88e-013.75e+005.83e-03Male-biased
SARCKLF17EPHA33.31e+004.13e-034.11e+009.84e-01Female-biased
SARCZNF141EPHA33.51e+005.08e-034.27e+009.86e-01Female-biased
SARCZNF418EPHA34.49e+009.84e-013.90e+008.40e-03Male-biased
SKCMZNF418EPHA35.88e+009.94e-014.56e+004.67e-03Male-biased

check buttonEPHA3 related gene.
∗Only the gene encode TF might with this result.
∗For more information please check Sex-biased TF-Coding gene network.

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Sex-biased RBP-ES network for EPHA3

check buttonRBPs related to ES in EPHA3.
∗The female-biased RBP-ES edges were identified if Female_Edge_threshold>0.98 and Male_Edge_threshold<=0.98.
∗The male-biased RBP-ES edges were identified if Male_Edge_threshold>0.98 and Female_Edge_threshold<=0.98.
Cancer TypeRBPTarget ESMale Edge ScoreMale Edge ThresholdFemale Edge ScoreFemale Edge ThresholdType

check buttonEPHA3 related ES.
∗Only the gene encode RBP might with this result.
∗For more information please check Sex-biased RBP-ES network in cancer.

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Sex-biased CeRNA regulation of gene

check buttonSex-biased CeRNA regulation of gene.
Gene IDceRNA(lncRNA-miRNA-mRNA)GroupCancer Type
ENSG00000044524AL513534.2,hsa-mir-410,EPHA3Female-specific ceRNATCGA-KICH
ENSG00000044524AC021851.1,hsa-mir-410,EPHA3Female-specific ceRNATCGA-KICH
ENSG00000044524AL021368.2,hsa-mir-410,EPHA3Female-specific ceRNATCGA-KICH
ENSG00000044524TNFRSF10A-AS1,hsa-mir-410,EPHA3Female-specific ceRNATCGA-KICH

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Sex-biased eQTL regulation of gene

check buttonSex-biased eQTL regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table).
eQTLDescription

check buttonMale-specific eQTL regulation.
SNP IDSNP InfoPosition to GeneEffect ScoreFDRCancer TypeBiased Type
rs6779710chr3:89218000:A:Ggene-0.0873281929302320.038288545684107LGGFemale-baised eQTL
rs6804377chr3:89221937:G:Agene-0.08595267659471450.0390978713777807LGGFemale-baised eQTL
rs7432305chr3:88572464:T:C-0.1459661939464780.0328488837073242BLCAFemale-baised eQTL
rs199574043chr3:88503919:C:T-0.1422195438899790.0451938266124555BLCAFemale-baised eQTL
rs74431559chr3:88506084:T:G-0.1422195438899790.0451938266124555BLCAFemale-baised eQTL
rs12634801chr3:88511011:G:A-0.1422195438899790.0451938266124555BLCAFemale-baised eQTL
rs11128050chr3:88511839:G:A-0.1422195438899790.0451938266124555BLCAFemale-baised eQTL
rs34482501chr3:85540383:C:T-0.06703907418256270.000486089018362523LUADFemale-baised eQTL
rs72895451chr3:79948137:C:A-0.0676664739501350.00321933513263748LUADFemale-baised eQTL
rs72895446chr3:79942241:G:A-0.06668117051562260.00325538879524246LUADFemale-baised eQTL
rs12629494chr3:80073277:C:T-0.06409423808818850.00737676386543935LUADFemale-baised eQTL
rs73145251chr3:87835642:A:G-0.06221559206309150.0102866919063012LUADFemale-baised eQTL
rs55838662chr3:87854899:C:A-0.06221559206309150.0102866919063012LUADFemale-baised eQTL
rs73139501chr3:87769348:A:G-0.06251093723256930.0107615628880046LUADFemale-baised eQTL
rs9839585chr3:88244988:C:A--0.04364424281263090.0142010243340595LUADFemale-baised eQTL
rs9846207chr3:88247177:T:C--0.04364424281263090.0142010243340595LUADFemale-baised eQTL
rs12495727chr3:87769693:C:T-0.05961012259035160.0167939789554222LUADFemale-baised eQTL
rs13323436chr3:85453695:T:A-0.04834790810619410.017577042229634LUADFemale-baised eQTL
rs12633178chr3:79918255:C:T-0.05584310554095460.0186253561368297LUADFemale-baised eQTL
rs6419870chr3:88238569:T:C--0.04175735997729550.0200567115572333LUADFemale-baised eQTL
rs7624964chr3:88242771:G:A--0.04175735997729550.0200567115572333LUADFemale-baised eQTL
rs6766902chr3:88234381:G:A--0.04145774492696670.0206348745491522LUADFemale-baised eQTL
rs6419871chr3:88241895:A:C--0.04156494549336840.0224954140951803LUADFemale-baised eQTL
rs72895418chr3:79919611:A:C-0.05343212424457970.0238621358654534LUADFemale-baised eQTL
rs74377359chr3:87756463:C:T-0.06136477200311880.0277077093866658LUADFemale-baised eQTL
rs77088570chr3:87760121:A:T-0.06136477200311880.0277077093866658LUADFemale-baised eQTL
rs79224652chr3:87758884:T:G-0.06125641384579350.0284077726869912LUADFemale-baised eQTL
rs12494155chr3:87762398:G:A-0.06125641384579350.0284077726869912LUADFemale-baised eQTL
rs80076905chr3:88845046:G:C-0.05150374066546820.0352277171930929LUADFemale-baised eQTL
rs9877300chr3:85913020:C:T-0.03776968607043130.040459750683841LUADFemale-baised eQTL
rs71316819chr3:85908976:G:A-0.03772374817993540.0411506795982995LUADFemale-baised eQTL
rs71316820chr3:85909129:G:C-0.03772374817993540.0411506795982995LUADFemale-baised eQTL
rs6774956chr3:88884004:C:T-0.04958520974803020.0458396837138805LUADFemale-baised eQTL

check buttonFemale-specific eQTL regulation.
SNP IDSNP InfoPosition to GeneEffect ScoreFDRCancer TypeBiased Type
rs763900chr3:89576295:A:T-0.09075065183834650.0381332828034398LGGMale-baised eQTL
rs17027041chr3:89577016:A:T-0.09075065183834650.0381332828034398LGGMale-baised eQTL
rs41404046chr3:89590036:C:T-0.09067380600016240.0387555870024435LGGMale-baised eQTL
rs72927439chr3:94969180:C:T-0.1074244517673260.0187009116573221LUADMale-baised eQTL

check buttonOpposite sex-biased eQTL regulation.
SNP IDSNP InfoPosition to GeneMale EffectMale FDRFemale EffectFemale FDRSex-biased Gene in CancerCancer Type

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Sex-biased eQTM regulation of gene

check buttonSex-biased eQTM regulation of gene (The figures only show the pairs with FDR<1e-5. For more information please check the below table).
eQTMDescription
eQTM boxplot analysisGene ID: ENSG00000044524
CpG Site: cg01360628
Position to Gene: promoter
Male Effect: -
Female Effect: -0.487316194474017

check buttonMale-specific eQTM regulation.
CpG SiteCpG PostionPosition to GeneEffect ScoreFDRCor.rCor.PvalueCancer Type

check buttonFemale-specific eQTM regulation.
CpG SiteCpG PostionPosition to GeneEffect ScoreFDRCor.rCor.PvalueCancer Type
cg01360628chr3:89106968promoter-0.4873161944740176.5991855288393e-54-0.83397076699756373.3120180381357066e-58LUAD

check buttonOpposite sex-biased eQTM regulation.
CpG SiteCpG PostionCpG IslandPosition to GeneMale EffectMale FDRFemale EffectFemale FDRMale CorMale P-valueFemale CorFemale P-valueSex-biased Coding GeneCancer Type

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Sex-biased sQTL regulation of gene

check buttonSex-biased sQTL regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table).
sQTLDescription

check buttonMale-specific sQTL regulation.
ES IDSkipped ExonORF AnnoSNP IDSNP InfoSNP Position to ESEffect ScoreFDRCancer TypeBiased Type

check buttonFemale-specific sQTL regulation.
ES IDSkipped ExonORF AnnoSNP IDSNP InfoSNP Position to ESEffect ScoreFDRCancer TypeBiased Type

check buttonOpposite sex-biased sQTL regulation.
ES IDSkipped ExonORF AnnoSNP IDSNP InfoSNP Position to ESMale EffectMale FDRFemale EffectFemale FDRCancer Type

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Sex-biased sQTM regulation of gene

check buttonSex-biased sQTM regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table).
sQTMDescription

check buttonMale-specific sQTM regulation.
EX IDSkipped ExonCPG SiteCPG PositionPosition to EX EventsEffect ScoreFDRCor.rCor.PvalueORF_annoCancer Type

check buttonFemale-specific sQTM regulation.
EX IDSkipped ExonCPG SiteCPG PositionPosition to EX EventsEffect ScoreFDRCor.rCor.PvalueORF_annoCancer Type

check buttonOpposite sex-biased sQTM regulation.
EX IDEX InfoSkipped ExonCPG SiteCPG PositionCPG IslandPosition to EX EventsMale EffectMale FDRFemale EffectFemale FDRMale CorrelationMale P-valueFemale CorrelationFemale P-valueORF_annoCancer Type

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Related disease information of EPHA3

check buttonDiseases associated with this gene (DisGeNET).
Gene IDGene SymbolDisease IDDisease NameNumber of PMIDSource
ENSG00000044524EPHA3C0004238Atrial Fibrillation2CTD_human
ENSG00000044524EPHA3C0235480Paroxysmal atrial fibrillation2CTD_human
ENSG00000044524EPHA3C2585653Persistent atrial fibrillation2CTD_human
ENSG00000044524EPHA3C3468561familial atrial fibrillation2CTD_human