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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: PFKP (ImmuneEditome ID:5214)

1. Gene summary of enriched editing regions for PFKP

check button Gene summary
Gene informationGene symbol

PFKP

Gene ID

5214

GeneSynonymsATP-PFK|PFK-C|PFK-P|PFKF
GeneCytomap

10p15.2

GeneTypeprotein-coding
GeneDescriptionATP-dependent 6-phosphofructokinase, platelet type|6-phosphofructokinase type C|6-phosphofructokinase, platelet type|phosphofructo-1-kinase isozyme C|phosphofructokinase 1|phosphohexokinase
GeneModificationdate20230409
UniprotIDQ01813;A0A7I2V3Z0;Q5VSR5;B1APP6;A0A7I2YQB6;V9GYV7;V9GY25;A0A7I2V5S1
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr10:3075621-3075874:+ENST00000421751.1ENSG00000067057.15PFKPncRNA_intronicAluJochr10:3075621-3075874:+.alignment
chr10:3125935-3126551:+ENST00000381075.5ENSG00000067057.15PFKPintronicNoRepeatchr10:3125935-3126551:+.alignment
chr10:3125935-3126551:+ENST00000381125.7ENSG00000067057.15PFKPintronicNoRepeatchr10:3125935-3126551:+.alignment
chr10:3125935-3126551:+ENST00000413079.1ENSG00000067057.15PFKPintronicNoRepeatchr10:3125935-3126551:+.alignment


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2. Tumor-specific enriched editing regions for PFKP


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
ENSG00000067057.15,PFKPKIRCPathEAG1.5859e-024.9524e-030.1390image
chr10:3125935-3126551:+KIRCPathEER1.2566e-022.2450e-030.1543image


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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
chr10:3125935-3126551:+OVEER1.4901e-022.4112e-022.6078e-03image

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3. Enriched editing regions and immune related genes for PFKP


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 PFKP


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
ENSG00000067057.15,PFKP
KIRCEAGIRENSG00000132199.14chr18691242:693175:693881:693908-0.29601.3212e-064.1893e-12-0.4337imageNACIN1;ADAR;AIFM1;ALYREF;AUH;BUD13;CELF2;CNBP;CPSF6;CSTF2T;DDX3X;DDX42;DDX54;DGCR8;DHX9;DKC1;EIF4A3;EIF4G2;ELAVL1;ELAVL3;FAM120A;FBL;FMR1;FTO;FUS;FXR1;FXR2;GNL3;HNRNPA1;HNRNPA2B1;HNRNPC;HNRNPK;HNRNPL;HNRNPM;HNRNPUL1;IGF2BP1;IGF2BP2;IGF2BP3;ILF3;KHDRBS1;KHDRBS2;KHDRBS3;KHSRP;LARP7;LIN28;LIN28A;LIN28B;LSM11;MOV10;MSI1;MSI2;NONO;NOP56;NOP58;NPM1;NUMA1;PRPF8;PTBP1;QKI;RANGAP1;RBFOX2;RBM10;RBM22;RBM27;RBM47;RBM5;RBM6;SBDS;SF3A3;SF3B4;SLBP;SLTM;SMNDC1;SRSF1;SRSF3;SRSF7;SRSF9;TAF15;TARBP2;TARDBP;TIA1;TIAL1;TRA2A;TROVE2;U2AF1;U2AF2;UPF1;VIM;YTHDC1;YTHDF1;YWHAGNAMacrophages_M2GSVA_HALLMARK_INTERFERON_ALPHA_RESPONSE

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5. Enriched editing regions and immune infiltration for PFKP


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
ENSG00000067057.15,PFKPBRCAEAGMast_cells_resting8.3481e-030.4451image
chr10:3125935-3126551:+ESCAEERT_cells_follicular_helper6.6813e-040.4607image
ENSG00000067057.15,PFKPESCAEAGT_cells_follicular_helper8.9875e-030.3169image
chr10:3125935-3126551:+GBMEERMonocytes4.8075e-020.2654image
chr10:3125935-3126551:+KIRCEERT_cells_CD81.7877e-030.1892image
ENSG00000067057.15,PFKPKIRCEAGT_cells_CD83.1934e-030.1747image
ENSG00000067057.15,PFKPKIRPEAGT_cells_CD4_memory_activated2.7348e-040.4370image
ENSG00000067057.15,PFKPLAMLEAGT_cells_gamma_delta3.2932e-020.3840image
chr10:3125935-3126551:+LGGEERMacrophages_M23.4556e-02-0.1164image
ENSG00000067057.15,PFKPLGGEAGNK_cells_activated1.4045e-020.1224image
chr10:3125935-3126551:+OVEERT_cells_CD4_memory_activated1.3602e-020.3694image
ENSG00000067057.15,PFKPOVEAGMonocytes3.0789e-020.2464image
chr10:3125935-3126551:+PCPGEERDendritic_cells_resting5.9551e-030.3729image
ENSG00000067057.15,PFKPPCPGEAGDendritic_cells_resting2.7573e-020.2869image
ENSG00000067057.15,PFKPSARCEAGB_cells_memory1.4391e-020.4574image
ENSG00000067057.15,PFKPSKCMEAGDendritic_cells_activated2.1478e-030.5468image
chr10:3125935-3126551:+STADEERNK_cells_resting1.6992e-02-0.2679image
ENSG00000067057.15,PFKPSTADEAGT_cells_CD4_memory_resting1.4585e-02-0.2180image
ENSG00000067057.15,PFKPTGCTEAGMacrophages_M24.6602e-02-0.2720image


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6. Enriched editing regions and immune gene sets for PFKP


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
ENSG00000067057.15,PFKPBRCAGSVA_HALLMARK_ESTROGEN_RESPONSE_EARLYEAG1.2424e-030.5307image
chr10:3125935-3126551:+ESCAGSVA_HALLMARK_KRAS_SIGNALING_UPEER2.8480e-020.3069image
ENSG00000067057.15,PFKPKIRCGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG2.8427e-050.2461image
chr10:3125935-3126551:+KIRCGSVA_HALLMARK_ALLOGRAFT_REJECTIONEER1.7988e-060.2858image
ENSG00000067057.15,PFKPKIRPGSVA_HALLMARK_HYPOXIAEAG2.6023e-020.2760image
ENSG00000067057.15,PFKPLAMLGSVA_HALLMARK_BILE_ACID_METABOLISMEAG6.0585e-03-0.4818image
ENSG00000067057.15,PFKPLGGGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEAG8.2494e-090.2824image
chr10:3125935-3126551:+LGGGSVA_HALLMARK_UV_RESPONSE_UPEER5.1992e-060.2478image
ENSG00000067057.15,PFKPLUADGSVA_HALLMARK_MYOGENESISEAG2.0985e-020.2240image
chr10:3125935-3126551:+LUSCGSVA_HALLMARK_MYC_TARGETS_V1EER9.7861e-03-0.3812image
ENSG00000067057.15,PFKPLUSCGSVA_HALLMARK_MYC_TARGETS_V1EAG1.0794e-02-0.3611image
ENSG00000067057.15,PFKPOVGSVA_HALLMARK_MYC_TARGETS_V1EAG4.8814e-030.3176image
chr10:3125935-3126551:+OVGSVA_HALLMARK_PANCREAS_BETA_CELLSEER1.7559e-020.3564image
ENSG00000067057.15,PFKPPCPGGSVA_HALLMARK_SPERMATOGENESISEAG1.0397e-020.3312image
chr10:3125935-3126551:+PCPGGSVA_HALLMARK_KRAS_SIGNALING_DNEER5.6395e-030.3752image
ENSG00000067057.15,PFKPSARCGSVA_HALLMARK_KRAS_SIGNALING_DNEAG4.6673e-020.3790image
ENSG00000067057.15,PFKPSTADGSVA_HALLMARK_MITOTIC_SPINDLEEAG7.0916e-03-0.2397image
chr10:3075621-3075874:+STADGSVA_HALLMARK_TNFA_SIGNALING_VIA_NFKBEER1.7808e-02-0.3443image
ENSG00000067057.15,PFKPTGCTGSVA_HALLMARK_GLYCOLYSISEAG6.6255e-03-0.3652image
chr10:3125935-3126551:+TGCTGSVA_HALLMARK_GLYCOLYSISEER7.8084e-03-0.3616image


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7. Enriched editing regions and drugs for PFKP


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
ENSG00000067057.15,PFKPBLCAGSK269962AEAG3.9238e-02-0.4148image
ENSG00000067057.15,PFKPBRCADMOGEAG6.0433e-030.4612image
chr10:3125935-3126551:+ESCAMidostaurinEER2.4692e-02-0.3143image
ENSG00000067057.15,PFKPKIRCCI.1040EAG1.6603e-05-0.2529image
chr10:3125935-3126551:+KIRCCI.1040EER6.6156e-08-0.3214image
ENSG00000067057.15,PFKPKIRPAZD.2281EAG5.9707e-03-0.3375image
ENSG00000067057.15,PFKPLAMLABT.888EAG1.4068e-020.4366image
ENSG00000067057.15,PFKPLGGAZD6482EAG1.4394e-070.2587image
chr10:3125935-3126551:+LGGEmbelinEER1.6101e-020.1324image
chr10:3125935-3126551:+LUADLapatinibEER1.4538e-02-0.2450image
ENSG00000067057.15,PFKPLUADLapatinibEAG1.0376e-02-0.2480image
chr10:3125935-3126551:+LUSCEmbelinEER1.7774e-02-0.3519image
ENSG00000067057.15,PFKPLUSCEpothilone.BEAG2.5361e-020.3192image
ENSG00000067057.15,PFKPOVEtoposideEAG4.0963e-03-0.3236image
chr10:3125935-3126551:+OVLapatinibEER1.3637e-02-0.3692image
ENSG00000067057.15,PFKPPCPGATRAEAG1.6398e-020.3113image
chr10:3125935-3126551:+PCPGATRAEER1.8998e-020.3213image
ENSG00000067057.15,PFKPSKCMBMS.754807EAG3.0115e-03-0.5314image
ENSG00000067057.15,PFKPSTADGNF.2EAG1.5240e-03-0.2806image
chr10:3125935-3126551:+STADJNJ.26854165EER1.1962e-03-0.3580image
chr10:3075621-3075874:+STADCCT018159EER1.7508e-030.4444image
ENSG00000067057.15,PFKPTGCTAMG.706EAG3.9031e-030.3864image
chr10:3125935-3126551:+TGCTAMG.706EER7.8758e-040.4472image


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