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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: RFFL (ImmuneEditome ID:117584)

1. Gene summary of enriched editing regions for RFFL

check button Gene summary
Gene informationGene symbol

RFFL

Gene ID

117584

GeneSynonymsCARP-2|CARP2|FRING|RIFIFYLIN|RNF189|RNF34L
GeneCytomap

17q12

GeneTypeprotein-coding
GeneDescriptionE3 ubiquitin-protein ligase rififylin|FYVE-RING finger protein SAKURA|RING finger and FYVE-like domain-containing protein 1|RING finger protein 189|RING-type E3 ubiquitin transferase rififylin|caspase 8 and 10 associated RING protein-2|caspase regulator CARP2|caspases-8 and -10-associated RING finger protein 2|ring finger and FYVE-like domain containing 1
GeneModificationdate20230329
UniprotIDQ8WZ73;J3KSI3;C9JE27;J3QR17
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr17:35056434-35057102:-ENST00000584541.1ENSG00000092871.15RFFLncRNA_intronicL2c,AluSp,AluSqchr17:35056434-35057102:-.alignment
chr17:35058640-35059340:-ENST00000584541.1ENSG00000092871.15RFFLncRNA_intronicMLT1H,AluSx1,AluSgchr17:35058640-35059340:-.alignment
chr17:35076041-35076644:-ENST00000584541.1ENSG00000092871.15RFFLncRNA_intronicAluSz,AluSp,MER66Bchr17:35076041-35076644:-.alignment
chr17:35078431-35079228:-ENST00000584541.1ENSG00000092871.15RFFLncRNA_intronicAluSz,Charlie21a,AluJochr17:35078431-35079228:-.alignment
chr17:35084104-35084859:-ENST00000584541.1ENSG00000092871.15RFFLncRNA_intronicAluSx,AluSx1chr17:35084104-35084859:-.alignment


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2. Tumor-specific enriched editing regions for RFFL


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
ENSG00000092871.15,RFFLBLCAEAG4.3882e-024.2889e-025.7695e+02image
ENSG00000092871.15,RFFLLAMLEAG1.4430e-029.8834e-038.5501e-03image
ENSG00000092871.15,RFFLLUADEAG3.5944e-023.5748e-021.7371e+02image

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3. Enriched editing regions and immune related genes for RFFL


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 RFFL


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 RFFL


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
ENSG00000092871.15,RFFLBLCAEAGT_cells_regulatory_(Tregs)1.0308e-020.3707image
ENSG00000092871.15,RFFLBRCAEAGMacrophages_M14.3421e-03-0.2301image
ENSG00000092871.15,RFFLCESCEAGT_cells_gamma_delta1.5405e-020.4456image
chr17:35076041-35076644:-ESCAEERT_cells_CD4_memory_activated8.4375e-030.3583image
ENSG00000092871.15,RFFLESCAEAGT_cells_regulatory_(Tregs)2.5562e-03-0.3434image
ENSG00000092871.15,RFFLHNSCEAGNK_cells_activated1.3724e-030.5067image
ENSG00000092871.15,RFFLKIRCEAGT_cells_CD4_memory_activated8.5815e-040.5006image
ENSG00000092871.15,RFFLLAMLEAGNK_cells_activated3.2741e-02-0.2347image
ENSG00000092871.15,RFFLLGGEAGT_cells_CD84.0229e-020.1296image
ENSG00000092871.15,RFFLLIHCEAGT_cells_regulatory_(Tregs)4.8052e-020.3272image
ENSG00000092871.15,RFFLLUADEAGDendritic_cells_activated2.0447e-030.3935image
ENSG00000092871.15,RFFLLUSCEAGT_cells_regulatory_(Tregs)1.9087e-020.4326image
ENSG00000092871.15,RFFLOVEAGNK_cells_activated3.5601e-020.2415image
ENSG00000092871.15,RFFLPAADEAGMast_cells_activated4.5418e-040.6835image
ENSG00000092871.15,RFFLPCPGEAGPlasma_cells3.8954e-02-0.3727image
ENSG00000092871.15,RFFLSARCEAGT_cells_CD4_memory_resting4.2943e-02-0.2792image
ENSG00000092871.15,RFFLSKCMEAGPlasma_cells2.3605e-02-0.3298image
chr17:35058640-35059340:-STADEERNK_cells_activated3.1363e-020.4004image
chr17:35076041-35076644:-STADEERT_cells_gamma_delta3.6755e-030.2390image
ENSG00000092871.15,RFFLSTADEAGEosinophils8.6092e-03-0.1901image
ENSG00000092871.15,RFFLUCECEAGNK_cells_resting2.0850e-020.4132image


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6. Enriched editing regions and immune gene sets for RFFL


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
ENSG00000092871.15,RFFLBLCAGSVA_HALLMARK_HEME_METABOLISMEAG3.1986e-02-0.3133image
ENSG00000092871.15,RFFLBRCAGSVA_HALLMARK_MITOTIC_SPINDLEEAG2.8871e-08-0.4314image
ENSG00000092871.15,RFFLCESCGSVA_HALLMARK_UV_RESPONSE_DNEAG1.4803e-02-0.4480image
ENSG00000092871.15,RFFLESCAGSVA_HALLMARK_MYC_TARGETS_V2EAG4.9611e-020.2275image
chr17:35076041-35076644:-ESCAGSVA_HALLMARK_MYC_TARGETS_V2EER9.8082e-040.4399image
ENSG00000092871.15,RFFLGBMGSVA_HALLMARK_MITOTIC_SPINDLEEAG9.2545e-03-0.3333image
ENSG00000092871.15,RFFLHNSCGSVA_HALLMARK_TNFA_SIGNALING_VIA_NFKBEAG8.5664e-05-0.6003image
ENSG00000092871.15,RFFLKIRCGSVA_HALLMARK_HEME_METABOLISMEAG4.6559e-05-0.5914image
ENSG00000092871.15,RFFLKIRPGSVA_HALLMARK_UV_RESPONSE_DNEAG3.9078e-03-0.5366image
ENSG00000092871.15,RFFLLAMLGSVA_HALLMARK_KRAS_SIGNALING_UPEAG4.3362e-020.2223image
ENSG00000092871.15,RFFLLGGGSVA_HALLMARK_UV_RESPONSE_DNEAG2.2132e-03-0.1923image
ENSG00000092871.15,RFFLLIHCGSVA_HALLMARK_PEROXISOMEEAG2.2717e-04-0.5705image
ENSG00000092871.15,RFFLLUADGSVA_HALLMARK_PI3K_AKT_MTOR_SIGNALINGEAG1.0914e-07-0.6268image
ENSG00000092871.15,RFFLLUSCGSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAYEAG3.6431e-020.3901image
ENSG00000092871.15,RFFLOVGSVA_HALLMARK_ESTROGEN_RESPONSE_EARLYEAG5.9577e-05-0.4437image
ENSG00000092871.15,RFFLPAADGSVA_HALLMARK_ESTROGEN_RESPONSE_EARLYEAG7.7856e-03-0.5516image
ENSG00000092871.15,RFFLPCPGGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG2.0426e-020.4145image
ENSG00000092871.15,RFFLPRADGSVA_HALLMARK_G2M_CHECKPOINTEAG2.9339e-02-0.2365image
ENSG00000092871.15,RFFLSARCGSVA_HALLMARK_MITOTIC_SPINDLEEAG2.4492e-05-0.5450image
chr17:35058640-35059340:-STADGSVA_HALLMARK_TNFA_SIGNALING_VIA_NFKBEER4.6237e-02-0.3731image
ENSG00000092871.15,RFFLSTADGSVA_HALLMARK_KRAS_SIGNALING_DNEAG2.1988e-04-0.2650image
chr17:35056434-35057102:-STADGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEER3.2413e-030.4250image
chr17:35076041-35076644:-STADGSVA_HALLMARK_MITOTIC_SPINDLEEER2.8483e-020.1814image
ENSG00000092871.15,RFFLUCECGSVA_HALLMARK_NOTCH_SIGNALINGEAG9.5957e-04-0.5637image


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7. Enriched editing regions and drugs for RFFL


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
ENSG00000092871.15,RFFLBLCAKIN001.135EAG1.3348e-030.4544image
ENSG00000092871.15,RFFLBRCADMOGEAG4.3322e-040.2819image
ENSG00000092871.15,RFFLCESCMetforminEAG1.6534e-02-0.4414image
ENSG00000092871.15,RFFLESCABIRB.0796EAG5.1270e-04-0.3916image
chr17:35076041-35076644:-ESCABIRB.0796EER9.6740e-05-0.5097image
ENSG00000092871.15,RFFLGBMDocetaxelEAG1.7813e-03-0.3951image
ENSG00000092871.15,RFFLHNSCEHT.1864EAG4.1941e-05-0.6205image
ENSG00000092871.15,RFFLKIRCAS601245EAG1.9452e-050.6142image
ENSG00000092871.15,RFFLKIRPGW843682XEAG4.4002e-03-0.5307image
ENSG00000092871.15,RFFLLAMLMetforminEAG1.0891e-020.2782image
ENSG00000092871.15,RFFLLGGA.770041EAG3.2827e-07-0.3156image
ENSG00000092871.15,RFFLLIHCAICAREAG1.5056e-050.6471image
ENSG00000092871.15,RFFLLUADBexaroteneEAG5.8843e-060.5518image
ENSG00000092871.15,RFFLLUSCBAY.61.3606EAG2.4740e-020.4162image
ENSG00000092871.15,RFFLOVBexaroteneEAG1.2175e-030.3642image
ENSG00000092871.15,RFFLPAADEtoposideEAG8.5261e-040.6718image
ENSG00000092871.15,RFFLPCPGAZD6482EAG2.8506e-020.3935image
ENSG00000092871.15,RFFLPRADGDC0941EAG3.4099e-02-0.2301image
ENSG00000092871.15,RFFLSARCAZD6482EAG2.3626e-150.8432image
ENSG00000092871.15,RFFLSKCMAICAREAG1.2490e-030.4568image
chr17:35058640-35059340:-STADATRAEER7.4106e-040.5907image
ENSG00000092871.15,RFFLSTADKU.55933EAG4.2658e-030.2064image
chr17:35056434-35057102:-STADABT.263EER5.5874e-030.4022image
chr17:35076041-35076644:-STADCamptothecinEER3.3111e-02-0.1765image
ENSG00000092871.15,RFFLTHCABryostatin.1EAG5.9532e-03-0.4380image
ENSG00000092871.15,RFFLUCECBicalutamideEAG6.7776e-030.4761image


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