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Center for Computational Systems Medicine
Soverview

1. Gene summary of enriched editing regions

Soverview

2. Tumor-specific enriched editing regions

Comparison of enriched editing regions between tumor and normal.

Correlation of enriched editing regions with tumor stages.

Associations of enriched editing regions with cancer survival.

Soverview

3. Enriched editing regions and immune related genes

Soverview

4. Enriched editing regions and immune related splicing

Soverview

5. Enriched editing regions and immune infiltration

Soverview

6. Enriched editing regions and immune gene sets

Correlation of enriched editing regions with epithelial-mesenchymal transition.

Correlations of enriched editing regions with hypoxic.

Associations of enriched editing regions with hallmark gene sets from MSigDB.

Soverview

7. Enriched editing regions and drugs

Correlations between enriched editing regions and drug sensitivity.

Enriched editing regions targeted by drugs from DrugBank database.

Editing gene: PPP6R3 (ImmuneEditome ID:55291)

1. Gene summary of enriched editing regions for PPP6R3

check button Gene summary
Gene informationGene symbol

PPP6R3

Gene ID

55291

GeneSynonymsC11orf23|PP6R3|SAP190|SAPL|SAPLa|SAPS3
GeneCytomap

11q13.2

GeneTypeprotein-coding
GeneDescriptionserine/threonine-protein phosphatase 6 regulatory subunit 3|SAPS domain family, member 3|sporulation-induced transcript 4-associated protein SAPL
GeneModificationdate20230517
UniprotIDQ5H9R7;E9PJD8;H7BXH2;E9PKG4;E9PQP7;E9PKF6;H0YEN2;E9PNN8;E9PK08
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr11:68463109-68464281:+ENST00000530427.4ENSG00000110075.13PPP6R3ncRNA_intronicMER20,AluSz,AluSg7,MER5A,(TG)nchr11:68463109-68464281:+.alignment
chr11:68470984-68471239:+ENST00000530427.4ENSG00000110075.13PPP6R3ncRNA_intronicAluY,L2achr11:68470984-68471239:+.alignment
chr11:68476745-68477654:+ENST00000530427.4ENSG00000110075.13PPP6R3ncRNA_intronicL1MB8,MER47C,AluJr,Tigger5bchr11:68476745-68477654:+.alignment
chr11:68482112-68482404:+ENST00000530427.4ENSG00000110075.13PPP6R3ncRNA_intronicAluSx1chr11:68482112-68482404:+.alignment
chr11:68483579-68484741:+ENST00000530427.4ENSG00000110075.13PPP6R3ncRNA_intronicAluSx1,(TA)n,AluSq2,L1MC1chr11:68483579-68484741:+.alignment
chr11:68485763-68486438:+ENST00000530427.4ENSG00000110075.13PPP6R3ncRNA_intronicAluY,AluSz,AluJb,L1MC1chr11:68485763-68486438:+.alignment
chr11:68531368-68531602:+ENST00000525050.4ENSG00000110075.13PPP6R3ncRNA_intronicAluJb,MER5A1chr11:68531368-68531602:+.alignment
chr11:68531368-68531602:+ENST00000527069.4ENSG00000110075.13PPP6R3ncRNA_intronicAluJb,MER5A1chr11:68531368-68531602:+.alignment
chr11:68531368-68531602:+ENST00000530427.4ENSG00000110075.13PPP6R3ncRNA_intronicAluJb,MER5A1chr11:68531368-68531602:+.alignment
chr11:68535664-68535861:+ENST00000525050.4ENSG00000110075.13PPP6R3ncRNA_intronicAluSzchr11:68535664-68535861:+.alignment
chr11:68535664-68535861:+ENST00000527069.4ENSG00000110075.13PPP6R3ncRNA_intronicAluSzchr11:68535664-68535861:+.alignment
chr11:68535664-68535861:+ENST00000530427.4ENSG00000110075.13PPP6R3ncRNA_intronicAluSzchr11:68535664-68535861:+.alignment
chr11:68588301-68588673:+ENST00000526307.4ENSG00000110075.13PPP6R3ncRNA_intronicAluYc,AluSq2chr11:68588301-68588673:+.alignment


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2. Tumor-specific enriched editing regions for PPP6R3


all structure

check buttonComparison of enriched editing regions between tumor and normal.
* P<0.05 and Informative number >=20.
* EER: enriched editing region, EAG: EER-associated genes.
ID_eventscancerTypePBoxplot


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check buttonCorrelation of enriched editing regions with tumor stages.
* AnovaP<0.05, Pearson P<0.05 and Informative number >=20.
* EER: enriched editing region, EAG: EER-associated genes, Path: Pathological stage, Cli: Clinical stage.
* Only shows the most significant correlation result of EERs/EAGs with either pathological stage or clinical stage according to correlation coefficient (R). For more results, please go to download page.
ID_eventscancerTypeStageTypeAnovaPPRBoxplot
chr11:68482112-68482404:+STADPathEER2.5876e-021.4416e-020.2184image


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check button Associations of enriched editing regions with cancer survival.
* Pkm<0.05 and Pcox<0.05.
* EER: enriched editing region, EAG: EER-associated genes.
ID_eventscancerTypeIDPkmPcox_continuousHR_continuousKMPlot
chr11:68535664-68535861:+ESCAEER1.6976e-021.5215e-023.0533e+01image

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3. Enriched editing regions and immune related genes for PPP6R3


all structure

check button Enriched editing regions and immune related genes.
* First, the associations between enriched editing regions and genes were tested by QTL and Pearson method (QTL: FDR<0.05 and Pearson: P<0.05).
* Second, the gene relationships with immune were tested by three analyses: whether the gene is an immune gene (InnateDB、Immport、Immunome、Immunogenetic Related Information Source (IRIS)), whether the gene is associated with immune infiltration and whether the gene is related to immune gene sets.
* EER: enriched editing region, EAG: EER-associated genes.
* Only shows the most significant correlation result of genes with the fraction of different immune cells and the scores of 50 hallmark genesets according to correlation coefficient (R). For more results, please go to download page.
ID_eventscancerTypeGenebetaFDRPearsonPPearsonRCorrelationPlotRBPRBPtargetsImmuneGeneImmuneFractionHallMark

More results



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4. Enriched editing regions and immune related splicing for PPP6R3


all structure

check button Enriched editing regions and immune related splicing.
* First, the associations between enriched editing regions and splicing events were tested by QTL and Pearson method (QTL: FDR<0.05 and Pearson: P<0.05).
* Second, the splicing relationships with immune were tested by three analyses: whether the splicing event locates in an immune gene (InnateDB、Immport, Immunome and Immunogenetic Related Information Source (IRIS)), whether the splicing event is associated with immune infiltration and whether the splicing event is related to immune gene sets.
* EER: enriched editing region, EAG: EER-associated genes.
* Only shows the most significant correlation result of splicing events with the fraction of different immune cells and the scores of 50 hallmark genesets according to correlation coefficient (R). For more results, please go to download page.
ID_eventscancerTypeSplicingTypeSplicingGeneSplicingChrSplicingPositionbetaFDRPearsonPPearsonRCorrelationPlotRBPRBPtargetsImmuneGeneImmuneFractionHallMark

More results



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5. Enriched editing regions and immune infiltration for PPP6R3


all structure

check button Associations of enriched editing regions with immune infiltration.
* P<0.05 and Informative number >=20.
* EER: enriched editing region, EAG: EER-associated genes.
* Only shows the most significant correlation result of EERs/EAGs with the fraction of different immune cells according to correlation coefficient (R). For more results, please go to download page.
ID_eventscancerTypeIDImmuneCellPRCorrelationPlot
ENSG00000110075.13,PPP6R3BRCAEAGMacrophages_M12.7214e-02-0.3292image
ENSG00000110075.13,PPP6R3ESCAEAGNK_cells_activated3.4864e-020.1996image
ENSG00000110075.13,PPP6R3LAMLEAGMast_cells_activated4.1296e-030.2481image
chr11:68482112-68482404:+OVEERNeutrophils3.0874e-020.2701image
chr11:68535664-68535861:+OVEERNeutrophils2.3587e-030.5262image
ENSG00000110075.13,PPP6R3OVEAGDendritic_cells_resting4.4955e-020.2131image
chr11:68463109-68464281:+STADEERT_cells_regulatory_(Tregs)1.1364e-02-0.3330image
chr11:68482112-68482404:+STADEERMast_cells_activated7.0178e-030.2363image
chr11:68485763-68486438:+STADEERT_cells_gamma_delta7.9887e-030.3394image
ENSG00000110075.13,PPP6R3STADEAGMast_cells_activated1.6489e-020.1738image


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6. Enriched editing regions and immune gene sets for PPP6R3


all structure

check button Correlation of enriched editing regions with epithelial-mesenchymal transition.
* First, the differences of enriched editing regions between Epi and Mes groups (defined by KS-test) were compared (P<0.05 and Informative number >=20).
* Second, the correlations between enriched editing regions and gene set score of HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION were analyzed (P<0.05 and Informative number >=20).
* EER: enriched editing region, EAG: EER-associated genes.
* Only shows the EERs/EAGs significantly edited between Epi and Mes group.
ID_eventscancerTypeE2M_PBoxplotCorPCorRCorrelationPlot


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check button Correlations of enriched editing regions with hypoxic.
* First, there are four hypoxia scores used in the database. The first three hypoxic scores were calculated on three gene sets of Buffa, Ragnum and Winter based on one previous study (PMID: 32024819). One last hypoxia score was defined on HALLMARK_HYPOXIA by GSVA method.
* Second, the correlations enriched editing regions with the four hypoxic scores were analyzed (P<0.05 and Informative number >=20).
* EER: enriched editing region, EAG: EER-associated genes.
* Only shows the EERs/EAGs significantly correlated with all four hypoxia gene set scores. For more results, please go to download page.
ID_eventscancerTypeBuffa_P Buffa_R Ragnum_P Ragnum_R Winter_P Winter_R HALLMARK_P HALLMARK_R CorrelationPlot


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check button Associations of enriched editing regions with hallmark gene sets from MSigDB.
* P<0.05 and Informative number >=20.
* EER: enriched editing region, EAG: EER-associated genes.
* Only shows the most significant correlation result of EERs/EAGs with the scores of 50 hallmark genesets according to correlation coefficient (R). For more results, please go to download page.
ID_eventscancerHallmarkTypeTypePRCorrelationPlot
ENSG00000110075.13,PPP6R3BRCAGSVA_HALLMARK_E2F_TARGETSEAG4.5187e-02-0.3001image
ENSG00000110075.13,PPP6R3ESCAGSVA_HALLMARK_HEME_METABOLISMEAG9.5222e-030.2440image
chr11:68535664-68535861:+ESCAGSVA_HALLMARK_MITOTIC_SPINDLEEER8.2494e-040.4018image
ENSG00000110075.13,PPP6R3LAMLGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG3.8671e-02-0.1802image
ENSG00000110075.13,PPP6R3LUADGSVA_HALLMARK_BILE_ACID_METABOLISMEAG1.9734e-02-0.4824image
chr11:68535664-68535861:+OVGSVA_HALLMARK_FATTY_ACID_METABOLISMEER6.3369e-030.4796image
chr11:68482112-68482404:+OVGSVA_HALLMARK_IL6_JAK_STAT3_SIGNALINGEER2.0636e-040.4479image
ENSG00000110075.13,PPP6R3OVGSVA_HALLMARK_BILE_ACID_METABOLISMEAG2.7867e-040.3763image
ENSG00000110075.13,PPP6R3STADGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG3.1964e-060.3306image
chr11:68482112-68482404:+STADGSVA_HALLMARK_HYPOXIAEER4.7195e-070.4263image
chr11:68485763-68486438:+STADGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEER1.9610e-020.3006image
chr11:68463109-68464281:+STADGSVA_HALLMARK_HYPOXIAEER4.9498e-040.4467image


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7. Enriched editing regions and drugs for PPP6R3


all structure

check button Correlations between enriched editing regions and drug sensitivity.
* First, the drug sensitivity (IS50) was estimated on 84 drugs by pRRophetic package.
* Second, the correlations between editing enriched regions and drug sensitivity were analyzed (P<0.05 and Informative number >=20).
* EER: enriched editing region, EAG: EER-associated genes.
* Only shows the most significant correlation result of EERs/EAGs with the IS50 scores of 84 drugs according to correlation coefficient (R). For more results, please go to download page.
ID_eventscancerDrugTypePRCorrelationPlot
ENSG00000110075.13,PPP6R3BRCAMidostaurinEAG2.3274e-03-0.4427image
chr11:68485763-68486438:+ESCACamptothecinEER2.2574e-030.4535image
ENSG00000110075.13,PPP6R3ESCABIRB.0796EAG2.5899e-020.2105image
ENSG00000110075.13,PPP6R3LUADEtoposideEAG1.8057e-03-0.6146image
chr11:68535664-68535861:+OVBMS.708163EER5.8482e-04-0.5826image
chr11:68482112-68482404:+OVJNK.Inhibitor.VIIIEER5.3032e-03-0.3446image
ENSG00000110075.13,PPP6R3OVBMS.708163EAG8.1370e-03-0.2789image
chr11:68483579-68484741:+STADDMOGEER2.6461e-02-0.4118image
ENSG00000110075.13,PPP6R3STADDMOGEAG7.8409e-05-0.2825image
chr11:68482112-68482404:+STADFTI.277EER6.0242e-05-0.3456image
chr11:68463109-68464281:+STADBortezomibEER1.1839e-03-0.4188image


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check button EAGs targeted by drugs from DrugBank database.
* EAG: EER-associated genes.
EERENSTUniprotIDDrugBankIDDrugDrugType