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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: SSU72 (ImmuneEditome ID:29101)

1. Gene summary of enriched editing regions for SSU72

check button Gene summary
Gene informationGene symbol

SSU72

Gene ID

29101

GeneSynonymsHSPC182|PNAS-120
GeneCytomap

1p36.33

GeneTypeprotein-coding
GeneDescriptionRNA polymerase II subunit A C-terminal domain phosphatase SSU72|CTD phosphatase SSU72
GeneModificationdate20230404
UniprotIDQ9NP77
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr1:1559626-1561404:-ENST00000378725.3ENSG00000160075.11SSU72ncRNA_intronicAluJr,AluJo,AluSg,MIR,AluSq2,AluSpchr1:1559626-1561404:-.alignment
chr1:1563335-1563761:-ENST00000378725.3ENSG00000160075.11SSU72ncRNA_intronicAluSx,AluSg7chr1:1563335-1563761:-.alignment


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2. Tumor-specific enriched editing regions for SSU72


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


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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 SSU72


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

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4. Enriched editing regions and immune related splicing for SSU72


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
ENSG00000160075.11,SSU72
UVMEAGA5ENSG00000136146.10chr1348090351:48090418:48095059:48095104:48094953:480951040.49422.8146e-021.9922e-050.4892imageNACIN1;ADAR;AIFM1;AUH;BCCIP;BUD13;CAPRIN1;CELF2;CNBP;CPSF6;CSTF2T;DDX3X;DDX42;DDX54;DGCR8;DHX9;DICER1;EIF4A3;EIF4G2;ELAVL1;ELAVL3;EWSR1;FAM120A;FBL;FKBP4;FMR1;FUS;FXR2;GNL3;GTF2F1;HNRNPA1;HNRNPA2B1;HNRNPC;HNRNPD;HNRNPK;HNRNPL;HNRNPM;IGF2BP1;IGF2BP2;IGF2BP3;KHDRBS2;KHSRP;LARP4B;LARP7;LIN28;LIN28B;METTL3;MOV10;MSI1;MSI2;NONO;NOP56;NOP58;NUMA1;PCBP2;PRPF8;PTBP1;PUM2;RANGAP1;RBFOX2;RBM10;RBM22;RBM27;RBM47;RBM6;RTCB;SBDS;SF3A3;SF3B4;SLTM;SMNDC1;SND1;SRSF1;SRSF10;SRSF3;SRSF7;SRSF9;TAF15;TARBP2;TARDBP;TIA1;TIAL1;TNRC6A;TRA2A;U2AF1;U2AF2;UPF1;XRN2;YTHDC1;YWHAG;ZC3H7B;ZNF184NAT_cells_CD4_naiveGSVA_HALLMARK_E2F_TARGETS
ENSG00000160075.11,SSU72
UVMEAGA3ENSG00000184634.11chrX71118834:71118853:71119372:71119477:71119338:711194770.36324.9311e-021.3572e-030.4493imageNACIN1;ADAR;AIFM1;AUH;BCCIP;BUD13;CELF2;CNBP;CPSF6;CSTF2T;DDX3X;DDX42;DDX54;DGCR8;DHX9;DKC1;EIF4A3;EIF4G2;ELAVL1;ELAVL3;EWSR1;FAM120A;FBL;FMR1;FTO;FUS;FXR1;FXR2;GNL3;GTF2F1;HNRNPA1;HNRNPA2B1;HNRNPC;HNRNPK;HNRNPL;HNRNPM;HNRNPU;HNRNPUL1;IGF2BP1;IGF2BP2;IGF2BP3;ILF3;KHDRBS1;KHSRP;LARP4B;LIN28;LIN28A;LIN28B;LSM11;METTL3;MOV10;MSI1;MSI2;NONO;NOP56;NOP58;NPM1;NUMA1;PCBP2;PRPF8;PTBP1;RANGAP1;RBFOX2;RBM10;RBM22;RBM27;RBM5;RNF219;SAFB2;SBDS;SF3A3;SF3B4;SLBP;SLTM;SMNDC1;SND1;SRSF1;SRSF3;SRSF7;SRSF9;TAF15;TARDBP;TIA1;TIAL1;TNRC6A;TRA2A;TROVE2;U2AF1;U2AF2;UPF1;VIM;XRN2;YTHDC1;YTHDF1;YWHAG;ZNF184NA

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5. Enriched editing regions and immune infiltration for SSU72


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
chr1:1559626-1561404:-BRCAEERT_cells_CD4_naive1.0074e-020.5147image
ENSG00000160075.11,SSU72BRCAEAGT_cells_CD4_naive6.6790e-040.3866image
ENSG00000160075.11,SSU72ESCAEAGT_cells_CD4_naive7.3924e-030.3397image
ENSG00000160075.11,SSU72HNSCEAGT_cells_follicular_helper2.4634e-020.4885image
ENSG00000160075.11,SSU72LAMLEAGT_cells_CD4_memory_resting4.0051e-030.4451image
ENSG00000160075.11,SSU72LGGEAGDendritic_cells_resting2.6946e-020.2957image
chr1:1559626-1561404:-OVEERT_cells_CD4_memory_activated2.1182e-02-0.4776image
chr1:1563335-1563761:-OVEERB_cells_memory1.4147e-020.4363image
ENSG00000160075.11,SSU72OVEAGEosinophils4.3697e-020.2730image
ENSG00000160075.11,SSU72PCPGEAGT_cells_follicular_helper3.8291e-020.3467image
chr1:1559626-1561404:-PRADEERT_cells_regulatory_(Tregs)4.1659e-040.4050image
ENSG00000160075.11,SSU72PRADEAGT_cells_regulatory_(Tregs)1.3977e-030.3578image
ENSG00000160075.11,SSU72SARCEAGMonocytes6.7998e-050.7220image
chr1:1559626-1561404:-SKCMEERNeutrophils1.0279e-020.3115image
chr1:1559626-1561404:-STADEERDendritic_cells_resting6.6366e-030.3150image
chr1:1563335-1563761:-STADEERDendritic_cells_resting9.3573e-030.3275image
ENSG00000160075.11,SSU72STADEAGDendritic_cells_resting3.2959e-050.3623image
chr1:1559626-1561404:-TGCTEERT_cells_CD89.1287e-030.3162image
ENSG00000160075.11,SSU72TGCTEAGT_cells_CD89.1287e-030.3162image


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6. Enriched editing regions and immune gene sets for SSU72


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
ENSG00000160075.11,SSU72BRCAGSVA_HALLMARK_G2M_CHECKPOINTEAG3.4948e-02-0.2456image
ENSG00000160075.11,SSU72ESCAGSVA_HALLMARK_SPERMATOGENESISEAG2.1996e-020.2929image
chr1:1559626-1561404:-ESCAGSVA_HALLMARK_APICAL_SURFACEEER2.9076e-020.3411image
ENSG00000160075.11,SSU72HNSCGSVA_HALLMARK_TGF_BETA_SIGNALINGEAG2.4364e-04-0.7185image
ENSG00000160075.11,SSU72LGGGSVA_HALLMARK_HEME_METABOLISMEAG3.4634e-04-0.4613image
ENSG00000160075.11,SSU72LUSCGSVA_HALLMARK_HYPOXIAEAG2.8702e-02-0.4772image
ENSG00000160075.11,SSU72OVGSVA_HALLMARK_INFLAMMATORY_RESPONSEEAG3.1743e-02-0.2900image
chr1:1563335-1563761:-OVGSVA_HALLMARK_APICAL_SURFACEEER8.3036e-03-0.4656image
ENSG00000160075.11,SSU72PCPGGSVA_HALLMARK_DNA_REPAIREAG4.0984e-020.3423image
chr1:1559626-1561404:-PCPGGSVA_HALLMARK_MTORC1_SIGNALINGEER5.6832e-030.5269image
chr1:1559626-1561404:-PRADGSVA_HALLMARK_COAGULATIONEER1.4059e-030.3694image
ENSG00000160075.11,SSU72PRADGSVA_HALLMARK_COAGULATIONEAG8.6743e-030.2972image
ENSG00000160075.11,SSU72SARCGSVA_HALLMARK_MITOTIC_SPINDLEEAG1.0018e-02-0.5150image
chr1:1559626-1561404:-SKCMGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEER7.7918e-030.3224image
chr1:1559626-1561404:-STADGSVA_HALLMARK_ANGIOGENESISEER3.4156e-030.3383image
chr1:1563335-1563761:-STADGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEER8.2908e-04-0.4138image
ENSG00000160075.11,SSU72THCAGSVA_HALLMARK_MYC_TARGETS_V1EAG1.7420e-020.2776image
chr1:1559626-1561404:-THCAGSVA_HALLMARK_ESTROGEN_RESPONSE_LATEEER3.3024e-020.2570image


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7. Enriched editing regions and drugs for SSU72


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
ENSG00000160075.11,SSU72BRCACHIR.99021EAG3.4420e-02-0.2463image
chr1:1559626-1561404:-BRCAEHT.1864EER2.9187e-020.4454image
ENSG00000160075.11,SSU72ESCALFM.A13EAG2.8497e-020.2806image
chr1:1559626-1561404:-ESCALapatinibEER3.1909e-03-0.4496image
ENSG00000160075.11,SSU72GBMGW843682XEAG4.8434e-02-0.3516image
ENSG00000160075.11,SSU72HNSCEmbelinEAG1.9526e-050.7911image
ENSG00000160075.11,SSU72KIRCJNJ.26854165EAG2.7771e-03-0.6323image
ENSG00000160075.11,SSU72LAMLDMOGEAG4.7001e-02-0.3160image
ENSG00000160075.11,SSU72LGGDocetaxelEAG1.8493e-07-0.6311image
ENSG00000160075.11,SSU72LUSCErlotinibEAG7.5326e-030.5656image
ENSG00000160075.11,SSU72OVBryostatin.1EAG1.1406e-020.3388image
chr1:1559626-1561404:-OVJW.7.52.1EER1.0510e-020.5226image
chr1:1563335-1563761:-OVBleomycinEER1.7542e-03-0.5390image
ENSG00000160075.11,SSU72PCPGAKT.inhibitor.VIIIEAG7.6881e-030.4371image
chr1:1559626-1561404:-PCPGKIN001.135EER3.5096e-02-0.4148image
chr1:1559626-1561404:-PRADBortezomibEER1.1875e-03-0.3746image
ENSG00000160075.11,SSU72PRADGSK269962AEAG2.6662e-03-0.3377image
ENSG00000160075.11,SSU72SARCMidostaurinEAG1.8185e-03-0.6029image
chr1:1559626-1561404:-SKCMCGP.60474EER1.7725e-02-0.2889image
ENSG00000160075.11,SSU72STADBI.2536EAG1.1114e-090.5113image
chr1:1559626-1561404:-STADDasatinibEER7.1670e-03-0.3122image
chr1:1563335-1563761:-STADBMS.509744EER4.6587e-02-0.2538image
chr1:1559626-1561404:-TGCTBX.795EER8.1606e-030.3206image
ENSG00000160075.11,SSU72TGCTBX.795EAG8.1606e-030.3206image
ENSG00000160075.11,SSU72THCABIBW2992EAG1.7143e-03-0.3608image
chr1:1559626-1561404:-THCABIBW2992EER1.9478e-03-0.3666image
ENSG00000160075.11,SSU72UVMDocetaxelEAG8.9348e-04-0.3910image


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