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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: GGNBP2 (ImmuneEditome ID:79893)

1. Gene summary of enriched editing regions for GGNBP2

check button Gene summary
Gene informationGene symbol

GGNBP2

Gene ID

79893

GeneSynonymsDIF-3|DIF3|LCRG1|LZK1|ZFP403|ZNF403
GeneCytomap

17q12

GeneTypeprotein-coding
GeneDescriptiongametogenetin-binding protein 2|C3HC4-type zinc finger protein|laryngeal carcinoma related gene 1|laryngeal carcinoma-related protein 1|zinc finger protein 403
GeneModificationdate20230329
UniprotIDA0A087X0E5;Q9H3C7;A0A087X1D7
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr17:36548360-36548872:+ENST00000617860.3ENSG00000278311.3GGNBP2ncRNA_intronicAluSq,AluSxchr17:36548360-36548872:+.alignment
chr17:36548360-36548872:+ENST00000618837.3ENSG00000278311.3GGNBP2ncRNA_intronicAluSq,AluSxchr17:36548360-36548872:+.alignment
chr17:36557901-36559287:+ENST00000617860.3ENSG00000278311.3GGNBP2ncRNA_intronicL2a,AluSq2,AluSg,AluSx1chr17:36557901-36559287:+.alignment
chr17:36557901-36559287:+ENST00000618837.3ENSG00000278311.3GGNBP2ncRNA_intronicL2a,AluSq2,AluSg,AluSx1chr17:36557901-36559287:+.alignment
chr17:36561675-36563264:+ENST00000617860.3ENSG00000278311.3GGNBP2ncRNA_intronicAluSz6,(T)n,AluSg,AluSq2,AluSc8chr17:36561675-36563264:+.alignment
chr17:36561675-36563264:+ENST00000618837.3ENSG00000278311.3GGNBP2ncRNA_intronicAluSz6,(T)n,AluSg,AluSq2,AluSc8chr17:36561675-36563264:+.alignment
chr17:36575795-36576446:+ENST00000617860.3ENSG00000278311.3GGNBP2ncRNA_intronicAluSx1,AluSqchr17:36575795-36576446:+.alignment
chr17:36575795-36576446:+ENST00000618837.3ENSG00000278311.3GGNBP2ncRNA_intronicAluSx1,AluSqchr17:36575795-36576446:+.alignment
chr17:36584684-36584892:+ENST00000618837.3ENSG00000278311.3GGNBP2ncRNA_intronicAluJrchr17:36584684-36584892:+.alignment
chr17:36584684-36584892:+ENST00000619573.1ENSG00000278311.3GGNBP2ncRNA_intronicAluJrchr17:36584684-36584892:+.alignment
chr17:36587585-36588723:+ENST00000620927.1ENSG00000278311.3GGNBP2ncRNA_intronicAluSp,AluSx,AluScchr17:36587585-36588723:+.alignment


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2. Tumor-specific enriched editing regions for GGNBP2


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
ENSG00000278311.3,GGNBP2KIRCEAG3.4894e-023.9751e-021.3015e+01image

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3. Enriched editing regions and immune related genes for GGNBP2


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 GGNBP2


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 GGNBP2


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
chr17:36587585-36588723:+BLCAEERT_cells_regulatory_(Tregs)2.4955e-02-0.3049image
chr17:36587585-36588723:+BRCAEERMast_cells_resting1.3085e-020.1894image
ENSG00000278311.3,GGNBP2CESCEAGT_cells_gamma_delta2.2030e-020.4388image
ENSG00000278311.3,GGNBP2COADEAGDendritic_cells_activated2.2444e-020.3602image
chr17:36561675-36563264:+ESCAEERDendritic_cells_activated9.9584e-04-0.5008image
ENSG00000278311.3,GGNBP2ESCAEAGT_cells_regulatory_(Tregs)4.1822e-02-0.2082image
chr17:36587585-36588723:+GBMEERDendritic_cells_activated2.2702e-030.5279image
ENSG00000278311.3,GGNBP2GBMEAGDendritic_cells_activated2.4254e-030.5250image
chr17:36587585-36588723:+KIRCEERT_cells_CD4_memory_resting8.4666e-030.3124image
ENSG00000278311.3,GGNBP2KIRCEAGT_cells_CD4_memory_activated7.5237e-040.3832image
chr17:36587585-36588723:+KIRPEERMacrophages_M21.7259e-02-0.3746image
ENSG00000278311.3,GGNBP2KIRPEAGMast_cells_resting3.6357e-020.3129image
ENSG00000278311.3,GGNBP2LGGEAGMacrophages_M02.9360e-02-0.3405image
chr17:36587585-36588723:+LUSCEERNK_cells_resting4.1432e-02-0.2204image
ENSG00000278311.3,GGNBP2LUSCEAGNK_cells_activated4.1984e-020.2149image
ENSG00000278311.3,GGNBP2OVEAGMacrophages_M24.0851e-030.4733image
ENSG00000278311.3,GGNBP2PAADEAGMast_cells_resting2.1644e-020.5099image
ENSG00000278311.3,GGNBP2SARCEAGMacrophages_M14.8123e-030.5557image
ENSG00000278311.3,GGNBP2SKCMEAGMast_cells_resting1.5817e-030.5600image
chr17:36557901-36559287:+STADEERMacrophages_M11.2763e-020.2826image
chr17:36561675-36563264:+STADEERMonocytes9.5188e-03-0.2520image
chr17:36575795-36576446:+STADEERT_cells_gamma_delta4.9071e-020.3507image
ENSG00000278311.3,GGNBP2STADEAGMonocytes1.4227e-02-0.1941image
ENSG00000278311.3,GGNBP2THCAEAGB_cells_naive6.9872e-030.3697image


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6. Enriched editing regions and immune gene sets for GGNBP2


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
ENSG00000278311.3,GGNBP2BLCAGSVA_HALLMARK_MYOGENESISEAG1.1282e-020.3277image
chr17:36587585-36588723:+BLCAGSVA_HALLMARK_HYPOXIAEER2.7047e-020.3009image
ENSG00000278311.3,GGNBP2BRCAGSVA_HALLMARK_MITOTIC_SPINDLEEAG7.6099e-03-0.1972image
chr17:36587585-36588723:+BRCAGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEER1.0142e-020.1961image
ENSG00000278311.3,GGNBP2CESCGSVA_HALLMARK_ALLOGRAFT_REJECTIONEAG9.5888e-040.5992image
ENSG00000278311.3,GGNBP2COADGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG1.7142e-02-0.3749image
chr17:36561675-36563264:+ESCAGSVA_HALLMARK_PANCREAS_BETA_CELLSEER1.2871e-020.3899image
ENSG00000278311.3,GGNBP2ESCAGSVA_HALLMARK_ANGIOGENESISEAG3.0566e-020.2209image
chr17:36587585-36588723:+GBMGSVA_HALLMARK_P53_PATHWAYEER7.3163e-030.4722image
ENSG00000278311.3,GGNBP2GBMGSVA_HALLMARK_P53_PATHWAYEAG6.7739e-030.4762image
ENSG00000278311.3,GGNBP2LAMLGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG2.0864e-020.2221image
ENSG00000278311.3,GGNBP2LGGGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEAG1.4931e-020.3776image
ENSG00000278311.3,GGNBP2LUADGSVA_HALLMARK_APOPTOSISEAG2.8825e-020.1797image
chr17:36587585-36588723:+LUADGSVA_HALLMARK_BILE_ACID_METABOLISMEER4.9789e-03-0.2422image
ENSG00000278311.3,GGNBP2LUSCGSVA_HALLMARK_DNA_REPAIREAG2.8432e-020.2311image
chr17:36587585-36588723:+LUSCGSVA_HALLMARK_DNA_REPAIREER3.7213e-020.2251image
ENSG00000278311.3,GGNBP2SARCGSVA_HALLMARK_TGF_BETA_SIGNALINGEAG3.1378e-02-0.4401image
ENSG00000278311.3,GGNBP2SKCMGSVA_HALLMARK_ANDROGEN_RESPONSEEAG8.7477e-03-0.4779image
chr17:36557901-36559287:+STADGSVA_HALLMARK_MITOTIC_SPINDLEEER7.5279e-030.3024image
chr17:36575795-36576446:+STADGSVA_HALLMARK_KRAS_SIGNALING_UPEER1.2759e-020.4354image
ENSG00000278311.3,GGNBP2STADGSVA_HALLMARK_MTORC1_SIGNALINGEAG4.4462e-020.1596image
ENSG00000278311.3,GGNBP2TGCTGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG2.4862e-030.5885image
ENSG00000278311.3,GGNBP2THCAGSVA_HALLMARK_ANDROGEN_RESPONSEEAG1.2955e-030.4343image


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7. Enriched editing regions and drugs for GGNBP2


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
ENSG00000278311.3,GGNBP2BLCAImatinibEAG4.4955e-02-0.2621image
chr17:36587585-36588723:+BLCACisplatinEER4.7587e-02-0.2709image
ENSG00000278311.3,GGNBP2BRCABryostatin.1EAG1.5156e-02-0.1798image
chr17:36587585-36588723:+BRCAA.770041EER3.5356e-03-0.2219image
ENSG00000278311.3,GGNBP2CESCAZD6244EAG7.3663e-03-0.5039image
ENSG00000278311.3,GGNBP2COADLFM.A13EAG3.8718e-03-0.4466image
chr17:36561675-36563264:+ESCACCT018159EER1.5656e-020.3797image
ENSG00000278311.3,GGNBP2ESCAElesclomolEAG2.7759e-02-0.2247image
chr17:36587585-36588723:+GBMABT.888EER1.9921e-020.4160image
ENSG00000278311.3,GGNBP2GBMABT.888EAG2.1501e-020.4114image
ENSG00000278311.3,GGNBP2KIRCJNK.9LEAG4.3301e-060.5056image
chr17:36587585-36588723:+KIRCJNK.9LEER7.0454e-060.5083image
chr17:36587585-36588723:+KIRPBI.D1870EER1.5028e-020.3819image
ENSG00000278311.3,GGNBP2KIRPBI.D1870EAG1.3884e-020.3643image
ENSG00000278311.3,GGNBP2LAMLJNK.Inhibitor.VIIIEAG3.0230e-02-0.2086image
ENSG00000278311.3,GGNBP2LGGCGP.60474EAG1.9138e-030.4704image
ENSG00000278311.3,GGNBP2LUADBIBW2992EAG5.1093e-04-0.2822image
chr17:36587585-36588723:+LUADAG.014699EER5.9941e-04-0.2938image
ENSG00000278311.3,GGNBP2LUSCCI.1040EAG1.4253e-020.2576image
chr17:36587585-36588723:+LUSCAP.24534EER1.4282e-020.2634image
ENSG00000278311.3,GGNBP2OVAICAREAG7.4811e-030.4444image
ENSG00000278311.3,GGNBP2PAADDoxorubicinEAG3.1473e-020.4818image
ENSG00000278311.3,GGNBP2SARCBI.2536EAG8.6840e-03-0.5233image
ENSG00000278311.3,GGNBP2SKCMErlotinibEAG2.1465e-03-0.5468image
chr17:36557901-36559287:+STADABT.263EER3.1415e-020.2455image
chr17:36575795-36576446:+STADBMS.708163EER4.8196e-02-0.3520image
chr17:36561675-36563264:+STADAZD.2281EER4.8863e-02-0.1937image
ENSG00000278311.3,GGNBP2TGCTCI.1040EAG4.0501e-02-0.4210image
ENSG00000278311.3,GGNBP2THCABMS.708163EAG1.8914e-03-0.4209image


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