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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: CENPA (ImmuneEditome ID:1058)

1. Gene summary of enriched editing regions for CENPA

check button Gene summary
Gene informationGene symbol

CENPA

Gene ID

1058

GeneSynonymsCENP-A|CenH3
GeneCytomap

2p23.3

GeneTypeprotein-coding
GeneDescriptionhistone H3-like centromeric protein A|centromere autoantigen A|centromere protein A, 17kDa|centromere-specific histone
GeneModificationdate20230404
UniprotIDP49450;F8WD88
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr2:26778992-26780108:+ENST00000475662.4ENSG00000115163.13CENPAncRNA_intronicAluJr,AluSx,MIR3,AluSc8chr2:26778992-26780108:+.alignment
chr2:26781798-26784874:+ENST00000475662.4ENSG00000115163.13CENPAncRNA_intronicAluJr,Tigger3b,AluSc,(AT)n,Tigger3c,AluSx3,Alu,AluJo,AluSx,L1MB3,MIR3,AluSc8,AluYchr2:26781798-26784874:+.alignment


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2. Tumor-specific enriched editing regions for CENPA


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
chr2:26781798-26784874:+THCAEER3.6353e-02image
ENSG00000115163.13,CENPATHCAEAG3.2617e-02image


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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 CENPA


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 CENPA


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

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5. Enriched editing regions and immune infiltration for CENPA


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
chr2:26781798-26784874:+BLCAEERNK_cells_activated1.4374e-020.2142image
ENSG00000115163.13,CENPABLCAEAGNK_cells_activated1.9108e-020.1979image
chr2:26781798-26784874:+BRCAEERT_cells_CD4_memory_resting1.0063e-020.1020image
ENSG00000115163.13,CENPABRCAEAGT_cells_CD4_memory_resting1.5186e-020.0956image
chr2:26781798-26784874:+CESCEERNeutrophils2.0657e-020.2256image
ENSG00000115163.13,CENPACESCEAGNeutrophils1.8497e-020.2295image
ENSG00000115163.13,CENPAESCAEAGMast_cells_resting4.8612e-020.1618image
chr2:26781798-26784874:+GBMEERDendritic_cells_resting1.1386e-020.2394image
ENSG00000115163.13,CENPAGBMEAGDendritic_cells_resting1.0657e-020.2404image
chr2:26781798-26784874:+HNSCEERT_cells_regulatory_(Tregs)2.4306e-020.2064image
ENSG00000115163.13,CENPAHNSCEAGT_cells_CD82.9964e-02-0.1958image
chr2:26781798-26784874:+KICHEERNeutrophils1.8835e-020.4410image
ENSG00000115163.13,CENPAKICHEAGNeutrophils1.8756e-020.4412image
chr2:26781798-26784874:+KIRCEERT_cells_regulatory_(Tregs)5.0824e-04-0.2289image
ENSG00000115163.13,CENPAKIRCEAGT_cells_regulatory_(Tregs)3.8776e-04-0.2335image
chr2:26781798-26784874:+KIRPEERMonocytes4.5880e-030.1888image
ENSG00000115163.13,CENPAKIRPEAGMonocytes6.5530e-030.1804image
ENSG00000115163.13,CENPALGGEAGNeutrophils4.4163e-020.1328image
chr2:26781798-26784874:+LIHCEERMacrophages_M01.2749e-02-0.1785image
ENSG00000115163.13,CENPALIHCEAGMacrophages_M02.0051e-02-0.1660image
chr2:26781798-26784874:+LUADEEREosinophils1.7391e-070.4001image
ENSG00000115163.13,CENPALUADEAGMonocytes6.9853e-040.2629image
chr2:26781798-26784874:+LUSCEERT_cells_CD4_naive1.5593e-030.2857image
ENSG00000115163.13,CENPALUSCEAGT_cells_CD4_naive1.1422e-030.2935image
chr2:26781798-26784874:+OVEERT_cells_gamma_delta4.1710e-020.1410image
ENSG00000115163.13,CENPAOVEAGB_cells_memory4.0643e-02-0.1388image
ENSG00000115163.13,CENPAPAADEAGT_cells_gamma_delta2.3005e-020.4138image
ENSG00000115163.13,CENPAPCPGEAGEosinophils4.1145e-020.2465image
chr2:26781798-26784874:+PRADEERNeutrophils4.8742e-020.1421image
ENSG00000115163.13,CENPAPRADEAGNeutrophils3.7382e-020.1488image
chr2:26781798-26784874:+SARCEERT_cells_CD4_memory_resting5.4251e-030.2600image
ENSG00000115163.13,CENPASARCEAGT_cells_CD4_memory_resting5.2605e-030.2586image
chr2:26781798-26784874:+SKCMEERDendritic_cells_activated3.6732e-020.1449image
ENSG00000115163.13,CENPASKCMEAGDendritic_cells_activated3.6719e-020.1449image
chr2:26778992-26780108:+STADEERMast_cells_resting4.1203e-020.2713image
chr2:26781798-26784874:+STADEERT_cells_CD4_memory_activated1.1307e-030.2001image
ENSG00000115163.13,CENPASTADEAGMonocytes3.5200e-02-0.1275image
chr2:26781798-26784874:+TGCTEERNK_cells_activated1.0243e-02-0.3672image
ENSG00000115163.13,CENPATGCTEAGNK_cells_activated8.9356e-03-0.3697image
chr2:26781798-26784874:+THCAEERB_cells_naive6.5834e-030.1714image
ENSG00000115163.13,CENPATHCAEAGB_cells_naive4.0751e-030.1807image
chr2:26781798-26784874:+UCECEERT_cells_CD4_memory_resting1.3212e-020.2710image
chr2:26781798-26784874:+UCSEERB_cells_memory4.7606e-02-0.4268image


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6. Enriched editing regions and immune gene sets for CENPA


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
ENSG00000115163.13,CENPABLCAGSVA_HALLMARK_GLYCOLYSISEAG4.5148e-020.1696image
chr2:26781798-26784874:+BRCAGSVA_HALLMARK_PROTEIN_SECRETIONEER1.0827e-080.2242image
ENSG00000115163.13,CENPABRCAGSVA_HALLMARK_PROTEIN_SECRETIONEAG1.4355e-080.2210image
ENSG00000115163.13,CENPACESCGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG1.2206e-020.2438image
chr2:26781798-26784874:+CESCGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEER1.3682e-020.2400image
chr2:26781798-26784874:+CHOLGSVA_HALLMARK_UV_RESPONSE_DNEER7.7439e-030.5640image
ENSG00000115163.13,CENPACHOLGSVA_HALLMARK_UV_RESPONSE_DNEAG7.6586e-030.5646image
chr2:26781798-26784874:+ESCAGSVA_HALLMARK_BILE_ACID_METABOLISMEER1.2467e-02-0.2056image
ENSG00000115163.13,CENPAESCAGSVA_HALLMARK_BILE_ACID_METABOLISMEAG3.9285e-02-0.1691image
chr2:26781798-26784874:+GBMGSVA_HALLMARK_PROTEIN_SECRETIONEER2.4713e-020.2131image
ENSG00000115163.13,CENPAGBMGSVA_HALLMARK_PROTEIN_SECRETIONEAG1.8050e-020.2231image
ENSG00000115163.13,CENPAHNSCGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG6.4305e-030.2445image
chr2:26781798-26784874:+HNSCGSVA_HALLMARK_UV_RESPONSE_DNEER1.6269e-020.2199image
ENSG00000115163.13,CENPAKICHGSVA_HALLMARK_PROTEIN_SECRETIONEAG1.2795e-020.4644image
chr2:26781798-26784874:+KICHGSVA_HALLMARK_PROTEIN_SECRETIONEER1.3110e-020.4629image
ENSG00000115163.13,CENPAKIRCGSVA_HALLMARK_MITOTIC_SPINDLEEAG2.3576e-030.2009image
chr2:26781798-26784874:+KIRCGSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAYEER2.4922e-03-0.1998image
ENSG00000115163.13,CENPAKIRPGSVA_HALLMARK_PROTEIN_SECRETIONEAG9.4020e-050.2568image
chr2:26781798-26784874:+KIRPGSVA_HALLMARK_PROTEIN_SECRETIONEER2.8248e-040.2404image
ENSG00000115163.13,CENPALGGGSVA_HALLMARK_MITOTIC_SPINDLEEAG2.7017e-100.4010image
chr2:26781798-26784874:+LGGGSVA_HALLMARK_MITOTIC_SPINDLEEER6.7973e-080.3571image
ENSG00000115163.13,CENPALIHCGSVA_HALLMARK_BILE_ACID_METABOLISMEAG1.9867e-030.2196image
chr2:26781798-26784874:+LIHCGSVA_HALLMARK_BILE_ACID_METABOLISMEER3.3362e-040.2550image
chr2:26781798-26784874:+LUADGSVA_HALLMARK_P53_PATHWAYEER1.5723e-03-0.2487image
ENSG00000115163.13,CENPALUADGSVA_HALLMARK_PROTEIN_SECRETIONEAG4.1985e-020.1595image
chr2:26781798-26784874:+LUSCGSVA_HALLMARK_GLYCOLYSISEER4.8907e-03-0.2553image
ENSG00000115163.13,CENPALUSCGSVA_HALLMARK_GLYCOLYSISEAG2.7569e-03-0.2710image
ENSG00000115163.13,CENPAMESOGSVA_HALLMARK_MYOGENESISEAG1.0488e-02-0.5024image
chr2:26781798-26784874:+MESOGSVA_HALLMARK_KRAS_SIGNALING_DNEER7.6546e-03-0.5204image
ENSG00000115163.13,CENPAOVGSVA_HALLMARK_BILE_ACID_METABOLISMEAG1.2235e-020.1694image
chr2:26781798-26784874:+OVGSVA_HALLMARK_BILE_ACID_METABOLISMEER5.0611e-040.2385image
ENSG00000115163.13,CENPAPAADGSVA_HALLMARK_ADIPOGENESISEAG1.2121e-030.5626image
chr2:26781798-26784874:+PCPGGSVA_HALLMARK_MYC_TARGETS_V2EER1.6760e-02-0.2892image
ENSG00000115163.13,CENPAPCPGGSVA_HALLMARK_UV_RESPONSE_DNEAG6.5125e-030.3246image
ENSG00000115163.13,CENPAPRADGSVA_HALLMARK_MITOTIC_SPINDLEEAG5.5434e-050.2838image
chr2:26781798-26784874:+PRADGSVA_HALLMARK_MITOTIC_SPINDLEEER2.0231e-040.2644image
ENSG00000115163.13,CENPASARCGSVA_HALLMARK_MITOTIC_SPINDLEEAG5.6887e-030.2563image
chr2:26781798-26784874:+SARCGSVA_HALLMARK_ANGIOGENESISEER6.4684e-03-0.2548image
ENSG00000115163.13,CENPASKCMGSVA_HALLMARK_UV_RESPONSE_DNEAG4.9458e-030.1942image
chr2:26781798-26784874:+SKCMGSVA_HALLMARK_UV_RESPONSE_DNEER5.0847e-030.1936image
chr2:26781798-26784874:+STADGSVA_HALLMARK_INTERFERON_GAMMA_RESPONSEEER2.7121e-030.1845image
chr2:26778992-26780108:+STADGSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAYEER6.7667e-03-0.3548image
ENSG00000115163.13,CENPASTADGSVA_HALLMARK_MITOTIC_SPINDLEEAG1.8401e-030.1877image
chr2:26781798-26784874:+TGCTGSVA_HALLMARK_MYC_TARGETS_V1EER6.4418e-04-0.4751image
ENSG00000115163.13,CENPATGCTGSVA_HALLMARK_MYC_TARGETS_V1EAG8.2371e-04-0.4624image
ENSG00000115163.13,CENPATHCAGSVA_HALLMARK_MITOTIC_SPINDLEEAG5.7655e-060.2818image
chr2:26781798-26784874:+THCAGSVA_HALLMARK_MITOTIC_SPINDLEEER2.5660e-050.2628image
ENSG00000115163.13,CENPAUCECGSVA_HALLMARK_COMPLEMENTEAG2.2984e-020.2450image
chr2:26781798-26784874:+UCECGSVA_HALLMARK_HEME_METABOLISMEER4.5367e-020.2203image


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7. Enriched editing regions and drugs for CENPA


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
ENSG00000115163.13,CENPAACCABT.263EAG1.0385e-020.3869image
chr2:26781798-26784874:+ACCABT.263EER1.0659e-020.3947image
ENSG00000115163.13,CENPABLCAGW.441756EAG2.8327e-04-0.3023image
chr2:26781798-26784874:+BLCAGW.441756EER1.1157e-04-0.3324image
ENSG00000115163.13,CENPABRCAGW843682XEAG1.5519e-100.2487image
chr2:26781798-26784874:+BRCAGW843682XEER6.9936e-110.2548image
chr2:26781798-26784874:+CESCJNK.9LEER3.1572e-02-0.2100image
ENSG00000115163.13,CENPACESCJNK.9LEAG2.9576e-02-0.2124image
chr2:26781798-26784874:+CHOLBMS.536924EER1.2427e-030.6560image
ENSG00000115163.13,CENPACHOLBMS.536924EAG1.1860e-030.6580image
ENSG00000115163.13,CENPACOADLFM.A13EAG6.8386e-03-0.4992image
ENSG00000115163.13,CENPAESCABX.795EAG2.0805e-03-0.2503image
chr2:26781798-26784874:+ESCABX.795EER3.1352e-03-0.2421image
ENSG00000115163.13,CENPAGBMCCT018159EAG1.1891e-03-0.3025image
chr2:26781798-26784874:+GBMCCT018159EER9.1750e-04-0.3103image
chr2:26781798-26784874:+HNSCIPA.3EER2.6008e-02-0.2041image
ENSG00000115163.13,CENPAHNSCAMG.706EAG6.7054e-030.2432image
ENSG00000115163.13,CENPAKICHKU.55933EAG5.7882e-030.5080image
chr2:26781798-26784874:+KICHKU.55933EER6.4818e-030.5021image
chr2:26781798-26784874:+KIRCBortezomibEER2.1146e-080.3612image
ENSG00000115163.13,CENPAKIRCBortezomibEAG1.6926e-080.3635image
chr2:26781798-26784874:+KIRPBMS.708163EER6.5093e-05-0.2636image
ENSG00000115163.13,CENPAKIRPBMS.708163EAG1.2709e-05-0.2859image
ENSG00000115163.13,CENPALGGMetforminEAG2.6520e-050.2732image
chr2:26781798-26784874:+LGGMetforminEER2.9235e-050.2803image
chr2:26781798-26784874:+LIHCBMS.509744EER1.1174e-060.3413image
ENSG00000115163.13,CENPALIHCBMS.509744EAG5.3181e-060.3186image
chr2:26781798-26784874:+LUADBexaroteneEER4.8261e-050.3165image
ENSG00000115163.13,CENPALUADBMS.708163EAG4.0886e-04-0.2736image
chr2:26781798-26784874:+LUSCATRAEER6.1310e-05-0.3574image
ENSG00000115163.13,CENPALUSCATRAEAG1.3108e-05-0.3863image
ENSG00000115163.13,CENPAMESOGW.441756EAG3.8393e-03-0.5568image
chr2:26781798-26784874:+MESOKU.55933EER8.6351e-030.5136image
chr2:26781798-26784874:+OVGSK269962AEER4.3228e-020.1400image
ENSG00000115163.13,CENPAOVBleomycinEAG5.0245e-030.1894image
ENSG00000115163.13,CENPAPAADBMS.708163EAG2.5001e-02-0.4085image
chr2:26781798-26784874:+PCPGAxitinibEER2.8369e-040.4268image
ENSG00000115163.13,CENPAPCPGAxitinibEAG1.9633e-030.3663image
ENSG00000115163.13,CENPAPRADBAY.61.3606EAG1.5547e-03-0.2246image
chr2:26781798-26784874:+PRADBAY.61.3606EER6.3593e-03-0.1958image
chr2:26781798-26784874:+SARCBryostatin.1EER2.6134e-040.3371image
ENSG00000115163.13,CENPASARCCEP.701EAG1.5853e-030.2913image
ENSG00000115163.13,CENPASKCMBI.D1870EAG2.0748e-020.1603image
chr2:26781798-26784874:+SKCMBI.D1870EER2.0514e-020.1606image
chr2:26781798-26784874:+STADMG.132EER5.5010e-04-0.2120image
chr2:26778992-26780108:+STADBIRB.0796EER1.6576e-04-0.4786image
ENSG00000115163.13,CENPASTADEtoposideEAG2.9838e-02-0.1315image
chr2:26781798-26784874:+TGCTCamptothecinEER3.4994e-050.5600image
ENSG00000115163.13,CENPATGCTCamptothecinEAG2.2603e-050.5659image
ENSG00000115163.13,CENPATHCABAY.61.3606EAG5.9031e-06-0.2815image
chr2:26781798-26784874:+THCABAY.61.3606EER4.2560e-05-0.2558image
ENSG00000115163.13,CENPAUCECABT.263EAG4.8454e-02-0.2135image
chr2:26781798-26784874:+UCECA.443654EER1.1590e-020.2759image
chr2:26781798-26784874:+UCSCGP.60474EER3.5147e-020.4510image
ENSG00000115163.13,CENPAUCSCGP.60474EAG2.1865e-020.4754image


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