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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: NUCB2 (ImmuneEditome ID:4925)

1. Gene summary of enriched editing regions for NUCB2

check button Gene summary
Gene informationGene symbol

NUCB2

Gene ID

4925

GeneSynonymsHEL-S-109|NEFA
GeneCytomap

11p15.1

GeneTypeprotein-coding
GeneDescriptionnucleobindin-2|DNA-binding protein NEFA|epididymis secretory protein Li 109|gastric cancer antigen Zg4|nesfatin 1|novel DNA binding/EF-hand/leucine zipper protein|nucleobinding 2|prepronesfatin
GeneModificationdate20230517
UniprotIDP80303;E9PJP3;A0A2R8Y6G7;E9PLE9;E9PLR5;E9PRQ3;E9PLR0;E9PKG6;A0A1B0GXJ7;E9PM22
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr11:17231918-17232432:+ENST00000528644.4ENSG00000070081.14NUCB2intronicAluSz,AluSz6,HAL1chr11:17231918-17232432:+.alignment
chr11:17298353-17298841:+ENST00000323688.9ENSG00000070081.14NUCB2intronicAluSz6,AluJochr11:17298353-17298841:+.alignment
chr11:17298353-17298841:+ENST00000458064.5ENSG00000070081.14NUCB2intronicAluSz6,AluJochr11:17298353-17298841:+.alignment
chr11:17298353-17298841:+ENST00000529010.4ENSG00000070081.14NUCB2intronicAluSz6,AluJochr11:17298353-17298841:+.alignment
chr11:17298353-17298841:+ENST00000529313.4ENSG00000070081.14NUCB2intronicAluSz6,AluJochr11:17298353-17298841:+.alignment
chr11:17298353-17298841:+ENST00000530527.4ENSG00000070081.14NUCB2intronicAluSz6,AluJochr11:17298353-17298841:+.alignment
chr11:17298353-17298841:+ENST00000533773.4ENSG00000070081.14NUCB2intronicAluSz6,AluJochr11:17298353-17298841:+.alignment
chr11:17298353-17298841:+ENST00000533926.4ENSG00000070081.14NUCB2intronicAluSz6,AluJochr11:17298353-17298841:+.alignment
chr11:17298353-17298841:+ENST00000622082.3ENSG00000070081.14NUCB2intronicAluSz6,AluJochr11:17298353-17298841:+.alignment
chr11:17332712-17333022:+ENST00000532240.1ENSG00000070081.14NUCB2ncRNA_exonicAluJr,MLT1J-intchr11:17332712-17333022:+.alignment
chr11:17334582-17337961:+ENST00000532240.1ENSG00000070081.14NUCB2ncRNA_exonicLTR67B,AluJr4,AluSx,AluSq2,AluSz,AluSg4,Tigger4a,AluYchr11:17334582-17337961:+.alignment


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2. Tumor-specific enriched editing regions for NUCB2


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
chr11:17334582-17337961:+BRCAEER3.1507e-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 NUCB2


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 NUCB2


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 NUCB2


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
chr11:17334582-17337961:+KIRCEERNK_cells_resting1.2713e-020.2708image
ENSG00000070081.14,NUCB2KIRCEAGMacrophages_M01.8511e-02-0.2340image
chr11:17298353-17298841:+LAMLEERT_cells_CD4_naive8.1207e-03-0.4403image
chr11:17334582-17337961:+LAMLEERT_cells_CD4_memory_activated1.2905e-020.2227image
ENSG00000070081.14,NUCB2LAMLEAGT_cells_CD4_memory_activated3.4367e-030.2568image
ENSG00000070081.14,NUCB2LGGEAGT_cells_CD4_memory_resting1.8058e-020.3436image
ENSG00000070081.14,NUCB2LUADEAGDendritic_cells_activated3.8612e-02-0.3617image
chr11:17334582-17337961:+OVEERMast_cells_activated3.1267e-020.4707image
chr11:17334582-17337961:+PCPGEERMonocytes1.0096e-020.3717image
ENSG00000070081.14,NUCB2PRADEAGDendritic_cells_activated3.5671e-050.4279image
chr11:17334582-17337961:+SARCEERMast_cells_resting1.3116e-020.4274image
ENSG00000070081.14,NUCB2SARCEAGMast_cells_resting1.1617e-020.3952image
chr11:17334582-17337961:+STADEERT_cells_follicular_helper1.4814e-040.3011image
ENSG00000070081.14,NUCB2STADEAGT_cells_follicular_helper1.5215e-030.2456image
ENSG00000070081.14,NUCB2THCAEAGDendritic_cells_activated1.4151e-020.3759image
chr11:17334582-17337961:+THYMEERMacrophages_M03.2321e-130.9131image
ENSG00000070081.14,NUCB2THYMEAGMacrophages_M03.2978e-060.7206image


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6. Enriched editing regions and immune gene sets for NUCB2


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
ENSG00000070081.14,NUCB2BRCAGSVA_HALLMARK_E2F_TARGETSEAG2.2988e-02-0.1166image
chr11:17334582-17337961:+BRCAGSVA_HALLMARK_G2M_CHECKPOINTEER4.4063e-03-0.1532image
ENSG00000070081.14,NUCB2LAMLGSVA_HALLMARK_NOTCH_SIGNALINGEAG7.3464e-040.2947image
chr11:17298353-17298841:+LAMLGSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAYEER1.8170e-020.3971image
chr11:17334582-17337961:+LAMLGSVA_HALLMARK_UV_RESPONSE_DNEER2.1193e-030.2735image
ENSG00000070081.14,NUCB2LGGGSVA_HALLMARK_GLYCOLYSISEAG9.3226e-030.3754image
ENSG00000070081.14,NUCB2LUADGSVA_HALLMARK_PI3K_AKT_MTOR_SIGNALINGEAG2.8525e-02-0.3814image
ENSG00000070081.14,NUCB2OVGSVA_HALLMARK_MITOTIC_SPINDLEEAG5.0685e-03-0.4295image
chr11:17334582-17337961:+OVGSVA_HALLMARK_PROTEIN_SECRETIONEER3.0732e-02-0.4720image
chr11:17334582-17337961:+PRADGSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAYEER1.8527e-02-0.2892image
ENSG00000070081.14,NUCB2PRADGSVA_HALLMARK_DNA_REPAIREAG8.3600e-04-0.3517image
ENSG00000070081.14,NUCB2SARCGSVA_HALLMARK_UV_RESPONSE_UPEAG5.8538e-03-0.4281image
chr11:17334582-17337961:+SARCGSVA_HALLMARK_KRAS_SIGNALING_DNEER3.9890e-02-0.3595image
chr11:17334582-17337961:+STADGSVA_HALLMARK_PROTEIN_SECRETIONEER4.7830e-02-0.1597image
ENSG00000070081.14,NUCB2THCAGSVA_HALLMARK_COAGULATIONEAG2.2602e-030.4585image
chr11:17334582-17337961:+THYMGSVA_HALLMARK_MITOTIC_SPINDLEEER6.9865e-03-0.4674image
ENSG00000070081.14,NUCB2THYMGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG1.5165e-02-0.4256image


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7. Enriched editing regions and drugs for NUCB2


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
ENSG00000070081.14,NUCB2BRCAImatinibEAG3.8143e-02-0.1064image
chr11:17334582-17337961:+BRCAA.770041EER2.7951e-02-0.1187image
ENSG00000070081.14,NUCB2ESCABicalutamideEAG3.7868e-020.2387image
chr11:17334582-17337961:+ESCABicalutamideEER3.5431e-020.2417image
ENSG00000070081.14,NUCB2KIRCMG.132EAG1.1811e-020.2496image
chr11:17334582-17337961:+KIRCCMKEER4.1381e-030.3098image
ENSG00000070081.14,NUCB2LAMLDasatinibEAG7.6022e-04-0.2939image
chr11:17298353-17298841:+LAMLCCT007093EER5.2326e-040.5561image
chr11:17334582-17337961:+LAMLEHT.1864EER4.0863e-030.2561image
ENSG00000070081.14,NUCB2LGGCHIR.99021EAG3.8718e-02-0.3026image
ENSG00000070081.14,NUCB2OVATRAEAG1.1891e-020.3892image
chr11:17334582-17337961:+OVAZD6244EER4.9110e-04-0.6934image
chr11:17334582-17337961:+PCPGAKT.inhibitor.VIIIEER1.2839e-020.3604image
ENSG00000070081.14,NUCB2PCPGBIBW2992EAG3.1400e-020.2782image
chr11:17334582-17337961:+PRADMetforminEER6.7352e-030.3304image
ENSG00000070081.14,NUCB2PRADCCT007093EAG3.0740e-06-0.4765image
ENSG00000070081.14,NUCB2SARCBAY.61.3606EAG2.6491e-05-0.6126image
chr11:17334582-17337961:+SARCBleomycinEER2.8802e-04-0.5916image
chr11:17334582-17337961:+STADCisplatinEER5.1289e-03-0.2245image
ENSG00000070081.14,NUCB2STADCisplatinEAG5.4016e-03-0.2163image
ENSG00000070081.14,NUCB2THCAAG.014699EAG3.7974e-040.5230image
chr11:17334582-17337961:+THYMCyclopamineEER3.1270e-10-0.8591image
ENSG00000070081.14,NUCB2THYMCyclopamineEAG1.9543e-06-0.7317image


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