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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: NSUN3 (ImmuneEditome ID:63899)

1. Gene summary of enriched editing regions for NSUN3

check button Gene summary
Gene informationGene symbol

NSUN3

Gene ID

63899

GeneSynonymsCOXPD48|MST077|MSTP077
GeneCytomap

3q11.2

GeneTypeprotein-coding
GeneDescriptiontRNA (cytosine(34)-C(5))-methyltransferase, mitochondrial|NOL1/NOP2/Sun domain family member 3|NOP2/Sun RNA methyltransferase family member 3|putative methyltransferase NSUN3
GeneModificationdate20230403
UniprotIDQ9H649;F8WF52
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr3:94089868-94091130:+ENST00000314622.7ENSG00000178694.8NSUN3intronicMER50,MER50B,L1MEdchr3:94089868-94091130:+.alignment
chr3:94089868-94091130:+ENST00000483378.1ENSG00000178694.8NSUN3intronicMER50,MER50B,L1MEdchr3:94089868-94091130:+.alignment
chr3:94092626-94092903:+ENST00000314622.7ENSG00000178694.8NSUN3intronicAluSxchr3:94092626-94092903:+.alignment
chr3:94092626-94092903:+ENST00000483378.1ENSG00000178694.8NSUN3intronicAluSxchr3:94092626-94092903:+.alignment


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2. Tumor-specific enriched editing regions for NSUN3


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
ENSG00000178694.8,NSUN3COADEAG1.1658e-05image
ENSG00000178694.8,NSUN3LUSCEAG4.0477e-03image
ENSG00000178694.8,NSUN3THCAEAG8.3904e-03image


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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
ENSG00000178694.8,NSUN3ESCACliEAG1.5445e-021.1393e-03-0.4428image
ENSG00000178694.8,NSUN3THCAPathEAG4.2591e-021.0252e-020.1442image


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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

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3. Enriched editing regions and immune related genes for NSUN3


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 NSUN3


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 NSUN3


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
ENSG00000178694.8,NSUN3BLCAEAGNK_cells_resting2.1370e-070.4096image
ENSG00000178694.8,NSUN3BRCAEAGNK_cells_activated5.5677e-030.0963image
ENSG00000178694.8,NSUN3CESCEAGT_cells_CD4_memory_resting3.2440e-02-0.1771image
ENSG00000178694.8,NSUN3COADEAGEosinophils1.4427e-030.2453image
chr3:94089868-94091130:+ESCAEERNK_cells_activated9.8499e-040.5886image
chr3:94092626-94092903:+ESCAEERNeutrophils5.4216e-040.4903image
ENSG00000178694.8,NSUN3ESCAEAGNK_cells_activated5.4059e-030.2284image
ENSG00000178694.8,NSUN3GBMEAGDendritic_cells_activated2.1095e-020.2514image
ENSG00000178694.8,NSUN3KIRCEAGB_cells_memory1.7752e-020.1399image
ENSG00000178694.8,NSUN3KIRPEAGB_cells_memory6.0504e-030.2452image
ENSG00000178694.8,NSUN3LGGEAGMacrophages_M06.7637e-03-0.1561image
ENSG00000178694.8,NSUN3LIHCEAGT_cells_gamma_delta2.6916e-020.2608image
ENSG00000178694.8,NSUN3LUADEAGT_cells_follicular_helper3.8031e-020.1247image
ENSG00000178694.8,NSUN3MESOEAGT_cells_CD82.1042e-030.5024image
ENSG00000178694.8,NSUN3OVEAGB_cells_naive4.5287e-02-0.1342image
ENSG00000178694.8,NSUN3PCPGEAGT_cells_CD81.4068e-02-0.3155image
ENSG00000178694.8,NSUN3PRADEAGDendritic_cells_resting1.9878e-03-0.1857image
ENSG00000178694.8,NSUN3READEAGT_cells_gamma_delta7.1322e-060.5360image
ENSG00000178694.8,NSUN3SARCEAGNeutrophils4.8391e-02-0.1861image
ENSG00000178694.8,NSUN3SKCMEAGT_cells_CD4_memory_resting3.3687e-020.1360image
chr3:94092626-94092903:+STADEERMacrophages_M16.4773e-030.2819image
ENSG00000178694.8,NSUN3TGCTEAGNK_cells_resting4.8902e-02-0.3900image
ENSG00000178694.8,NSUN3THCAEAGMacrophages_M25.1708e-03-0.1564image
ENSG00000178694.8,NSUN3THYMEAGMast_cells_resting2.1696e-02-0.3178image


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6. Enriched editing regions and immune gene sets for NSUN3


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
ENSG00000178694.8,NSUN3ACCGSVA_HALLMARK_TNFA_SIGNALING_VIA_NFKBEAG4.1808e-02-0.4019image
ENSG00000178694.8,NSUN3BLCAGSVA_HALLMARK_HEME_METABOLISMEAG4.5008e-02-0.1645image
ENSG00000178694.8,NSUN3BRCAGSVA_HALLMARK_KRAS_SIGNALING_DNEAG5.6642e-040.1196image
ENSG00000178694.8,NSUN3CESCGSVA_HALLMARK_ANDROGEN_RESPONSEEAG1.0707e-02-0.2106image
ENSG00000178694.8,NSUN3COADGSVA_HALLMARK_DNA_REPAIREAG5.5301e-04-0.2652image
chr3:94089868-94091130:+ESCAGSVA_HALLMARK_SPERMATOGENESISEER2.8027e-020.4152image
ENSG00000178694.8,NSUN3ESCAGSVA_HALLMARK_XENOBIOTIC_METABOLISMEAG4.6971e-03-0.2320image
chr3:94092626-94092903:+ESCAGSVA_HALLMARK_MYC_TARGETS_V2EER3.2055e-020.3166image
ENSG00000178694.8,NSUN3GBMGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEAG1.7442e-020.2588image
ENSG00000178694.8,NSUN3HNSCGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG5.7033e-040.2403image
ENSG00000178694.8,NSUN3KICHGSVA_HALLMARK_DNA_REPAIREAG1.7076e-02-0.4394image
ENSG00000178694.8,NSUN3KIRCGSVA_HALLMARK_E2F_TARGETSEAG2.0272e-04-0.2176image
ENSG00000178694.8,NSUN3KIRPGSVA_HALLMARK_PROTEIN_SECRETIONEAG1.0289e-03-0.2913image
ENSG00000178694.8,NSUN3LAMLGSVA_HALLMARK_P53_PATHWAYEAG6.4863e-03-0.3477image
ENSG00000178694.8,NSUN3LGGGSVA_HALLMARK_KRAS_SIGNALING_DNEAG2.1614e-040.2120image
ENSG00000178694.8,NSUN3LIHCGSVA_HALLMARK_PROTEIN_SECRETIONEAG6.1585e-07-0.5483image
ENSG00000178694.8,NSUN3LUADGSVA_HALLMARK_P53_PATHWAYEAG2.4271e-02-0.1353image
ENSG00000178694.8,NSUN3LUSCGSVA_HALLMARK_ALLOGRAFT_REJECTIONEAG1.0281e-030.1807image
ENSG00000178694.8,NSUN3MESOGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG9.0080e-030.4350image
ENSG00000178694.8,NSUN3PAADGSVA_HALLMARK_COAGULATIONEAG1.5213e-020.2812image
ENSG00000178694.8,NSUN3PRADGSVA_HALLMARK_PI3K_AKT_MTOR_SIGNALINGEAG2.5526e-07-0.3047image
ENSG00000178694.8,NSUN3SARCGSVA_HALLMARK_NOTCH_SIGNALINGEAG1.2289e-02-0.2348image
ENSG00000178694.8,NSUN3STADGSVA_HALLMARK_ANGIOGENESISEAG3.8216e-030.1620image
ENSG00000178694.8,NSUN3THCAGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG7.7434e-040.1876image
ENSG00000178694.8,NSUN3THYMGSVA_HALLMARK_ALLOGRAFT_REJECTIONEAG1.0954e-020.3501image
ENSG00000178694.8,NSUN3UCECGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG3.0944e-020.2968image
ENSG00000178694.8,NSUN3UCSGSVA_HALLMARK_CHOLESTEROL_HOMEOSTASISEAG2.0233e-02-0.4807image


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7. Enriched editing regions and drugs for NSUN3


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
ENSG00000178694.8,NSUN3ACCLapatinibEAG2.1621e-020.4483image
ENSG00000178694.8,NSUN3BLCALenalidomideEAG2.8197e-03-0.2430image
ENSG00000178694.8,NSUN3BRCACCT007093EAG1.3752e-020.0856image
ENSG00000178694.8,NSUN3CESCAZD.0530EAG7.5365e-03-0.2203image
ENSG00000178694.8,NSUN3COADLenalidomideEAG3.4255e-06-0.3515image
chr3:94092626-94092903:+ESCAFH535EER6.5825e-030.3951image
ENSG00000178694.8,NSUN3GBMErlotinibEAG5.5686e-07-0.5144image
ENSG00000178694.8,NSUN3HNSCKU.55933EAG1.2402e-03-0.2257image
ENSG00000178694.8,NSUN3KICHGW.441756EAG3.0536e-02-0.4022image
ENSG00000178694.8,NSUN3KIRCElesclomolEAG5.1857e-040.2040image
ENSG00000178694.8,NSUN3KIRPGDC.0449EAG2.0792e-04-0.3272image
ENSG00000178694.8,NSUN3LAMLAZD6244EAG1.1719e-020.3234image
ENSG00000178694.8,NSUN3LGGGefitinibEAG9.3718e-06-0.2527image
ENSG00000178694.8,NSUN3LIHCCCT007093EAG1.8871e-050.4811image
ENSG00000178694.8,NSUN3LUADEmbelinEAG8.2338e-040.1998image
ENSG00000178694.8,NSUN3LUSCGDC.0449EAG2.7429e-06-0.2560image
ENSG00000178694.8,NSUN3MESOA.770041EAG5.0241e-04-0.5575image
ENSG00000178694.8,NSUN3OVCGP.082996EAG9.7644e-030.1727image
ENSG00000178694.8,NSUN3PAADJW.7.52.1EAG3.0927e-04-0.4079image
ENSG00000178694.8,NSUN3PCPGAxitinibEAG3.0767e-02-0.2792image
ENSG00000178694.8,NSUN3PRADBMS.509744EAG5.4340e-05-0.2409image
ENSG00000178694.8,NSUN3READBIBW2992EAG1.9721e-020.2955image
ENSG00000178694.8,NSUN3SARCFH535EAG3.5906e-020.1976image
ENSG00000178694.8,NSUN3SKCMGW843682XEAG2.1248e-03-0.1958image
chr3:94092626-94092903:+STADAS601245EER1.4162e-02-0.2550image
ENSG00000178694.8,NSUN3STADAMG.706EAG2.4065e-03-0.1702image
ENSG00000178694.8,NSUN3THCAKU.55933EAG7.9969e-06-0.2475image
ENSG00000178694.8,NSUN3THYMFTI.277EAG2.8739e-030.4053image
ENSG00000178694.8,NSUN3UCECAxitinibEAG1.1245e-020.3456image
ENSG00000178694.8,NSUN3UCSEmbelinEAG1.1451e-02-0.5174image


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