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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: CLASRP (ImmuneEditome ID:11129)

1. Gene summary of enriched editing regions for CLASRP

check button Gene summary
Gene informationGene symbol

CLASRP

Gene ID

11129

GeneSynonymsCLASP|SFRS16|SWAP2
GeneCytomap

19q13.32

GeneTypeprotein-coding
GeneDescriptionCLK4-associating serine/arginine rich protein|Clk4 associating SR-related protein|splicing factor, arginine/serine-rich 16 (suppressor-of-white-apricot homolog, Drosophila)|suppressor of white apricot homolog 2
GeneModificationdate20230329
UniprotIDA0A0A0MQS2;F5H0Q6;K7EKR8;K7EKC9;K7EP11;K7EM61
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr19:45040755-45043346:+ENST00000592056.4ENSG00000104859.13CLASRPncRNA_intronicAluSx,AluYe5,L2,AluSz,(TA)n,(TG)n,AluY,Tigger4b,L2bchr19:45040755-45043346:+.alignment
chr19:45051440-45051937:+ENST00000592056.4ENSG00000104859.13CLASRPncRNA_intronicAluY,AluSxchr19:45051440-45051937:+.alignment
chr19:45065115-45066631:+ENST00000221455.6ENSG00000104859.13CLASRPintronicAluSx,AluSg,AluSc8,MIRb,MER102bchr19:45065115-45066631:+.alignment
chr19:45065115-45066631:+ENST00000391952.6ENSG00000104859.13CLASRPintronicAluSx,AluSg,AluSc8,MIRb,MER102bchr19:45065115-45066631:+.alignment
chr19:45065115-45066631:+ENST00000391953.7ENSG00000104859.13CLASRPintronicAluSx,AluSg,AluSc8,MIRb,MER102bchr19:45065115-45066631:+.alignment
chr19:45065115-45066631:+ENST00000544944.5ENSG00000104859.13CLASRPintronicAluSx,AluSg,AluSc8,MIRb,MER102bchr19:45065115-45066631:+.alignment


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2. Tumor-specific enriched editing regions for CLASRP


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

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3. Enriched editing regions and immune related genes for CLASRP


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 CLASRP


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 CLASRP


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
chr19:45065115-45066631:+CESCEERNeutrophils1.1401e-020.4228image
ENSG00000104859.13,CLASRPCESCEAGNeutrophils1.1672e-020.4215image
ENSG00000104859.13,CLASRPCOADEAGDendritic_cells_activated8.3244e-030.5598image
chr19:45065115-45066631:+ESCAEERB_cells_naive4.4040e-02-0.2008image
ENSG00000104859.13,CLASRPESCAEAGB_cells_naive4.6707e-03-0.2667image
chr19:45065115-45066631:+GBMEERMacrophages_M13.2428e-02-0.3061image
ENSG00000104859.13,CLASRPGBMEAGMacrophages_M12.6945e-02-0.3161image
chr19:45065115-45066631:+KIRCEERDendritic_cells_activated1.8076e-030.5087image
ENSG00000104859.13,CLASRPKIRCEAGDendritic_cells_activated3.6566e-030.4601image
ENSG00000104859.13,CLASRPLAMLEAGPlasma_cells5.4360e-030.2876image
chr19:45065115-45066631:+LGGEERT_cells_follicular_helper2.7739e-020.2819image
ENSG00000104859.13,CLASRPLGGEAGT_cells_follicular_helper2.7570e-020.2822image
chr19:45065115-45066631:+LUADEERMacrophages_M01.2580e-02-0.3204image
ENSG00000104859.13,CLASRPLUADEAGMacrophages_M01.0950e-02-0.3236image
ENSG00000104859.13,CLASRPLUSCEAGB_cells_memory3.4221e-020.3491image
chr19:45040755-45043346:+OVEERDendritic_cells_activated3.0010e-020.3840image
ENSG00000104859.13,CLASRPPRADEAGB_cells_memory8.4708e-030.5467image
chr19:45040755-45043346:+STADEERT_cells_CD4_memory_activated2.0173e-040.4114image
chr19:45051440-45051937:+STADEERMacrophages_M08.4527e-030.4964image
chr19:45065115-45066631:+STADEERT_cells_regulatory_(Tregs)3.9723e-03-0.2064image
ENSG00000104859.13,CLASRPSTADEAGT_cells_CD4_memory_activated2.9555e-030.2023image
chr19:45065115-45066631:+THCAEERNK_cells_activated3.9840e-020.3979image
ENSG00000104859.13,CLASRPTHCAEAGNK_cells_activated3.9840e-020.3979image


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6. Enriched editing regions and immune gene sets for CLASRP


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
ENSG00000104859.13,CLASRPBLCAGSVA_HALLMARK_SPERMATOGENESISEAG2.5712e-03-0.4298image
ENSG00000104859.13,CLASRPBRCAGSVA_HALLMARK_ANDROGEN_RESPONSEEAG1.3001e-050.4612image
chr19:45065115-45066631:+BRCAGSVA_HALLMARK_ANDROGEN_RESPONSEEER1.2218e-030.3713image
ENSG00000104859.13,CLASRPCESCGSVA_HALLMARK_INFLAMMATORY_RESPONSEEAG6.7780e-030.4493image
chr19:45065115-45066631:+CESCGSVA_HALLMARK_INFLAMMATORY_RESPONSEEER8.5217e-030.4379image
ENSG00000104859.13,CLASRPCOADGSVA_HALLMARK_APICAL_SURFACEEAG2.8122e-020.4788image
ENSG00000104859.13,CLASRPESCAGSVA_HALLMARK_HYPOXIAEAG1.3688e-020.2334image
ENSG00000104859.13,CLASRPGBMGSVA_HALLMARK_KRAS_SIGNALING_DNEAG1.4639e-030.4423image
chr19:45065115-45066631:+GBMGSVA_HALLMARK_KRAS_SIGNALING_DNEER1.7579e-030.4356image
chr19:45065115-45066631:+KIRCGSVA_HALLMARK_PEROXISOMEEER1.5410e-020.4064image
ENSG00000104859.13,CLASRPKIRCGSVA_HALLMARK_KRAS_SIGNALING_DNEAG1.4875e-02-0.3922image
ENSG00000104859.13,CLASRPLAMLGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG4.2776e-02-0.2117image
chr19:45065115-45066631:+LAMLGSVA_HALLMARK_ADIPOGENESISEER1.2950e-02-0.3804image
ENSG00000104859.13,CLASRPLGGGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG1.0913e-020.3238image
chr19:45065115-45066631:+LGGGSVA_HALLMARK_PANCREAS_BETA_CELLSEER1.0874e-020.3239image
ENSG00000104859.13,CLASRPLUSCGSVA_HALLMARK_PI3K_AKT_MTOR_SIGNALINGEAG2.3104e-030.4857image
chr19:45040755-45043346:+OVGSVA_HALLMARK_PANCREAS_BETA_CELLSEER1.1027e-020.4434image
chr19:45065115-45066631:+OVGSVA_HALLMARK_DNA_REPAIREER4.1874e-020.1801image
ENSG00000104859.13,CLASRPPRADGSVA_HALLMARK_TNFA_SIGNALING_VIA_NFKBEAG4.1135e-030.5866image
ENSG00000104859.13,CLASRPSKCMGSVA_HALLMARK_HYPOXIAEAG2.9055e-030.4952image
chr19:45065115-45066631:+SKCMGSVA_HALLMARK_HYPOXIAEER2.8790e-030.4956image
chr19:45040755-45043346:+STADGSVA_HALLMARK_COAGULATIONEER6.0929e-030.3099image
chr19:45065115-45066631:+STADGSVA_HALLMARK_UNFOLDED_PROTEIN_RESPONSEEER2.5812e-030.2158image
chr19:45051440-45051937:+STADGSVA_HALLMARK_TNFA_SIGNALING_VIA_NFKBEER3.5977e-020.4053image
ENSG00000104859.13,CLASRPSTADGSVA_HALLMARK_MTORC1_SIGNALINGEAG1.3050e-030.2184image
ENSG00000104859.13,CLASRPTGCTGSVA_HALLMARK_INFLAMMATORY_RESPONSEEAG5.6584e-030.4460image
chr19:45065115-45066631:+TGCTGSVA_HALLMARK_INFLAMMATORY_RESPONSEEER5.6584e-030.4460image


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7. Enriched editing regions and drugs for CLASRP


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
ENSG00000104859.13,CLASRPBLCAEHT.1864EAG1.3016e-030.4553image
ENSG00000104859.13,CLASRPCESCDMOGEAG1.4343e-03-0.5180image
chr19:45065115-45066631:+CESCDMOGEER1.7916e-03-0.5090image
ENSG00000104859.13,CLASRPCOADBleomycinEAG1.7608e-020.5122image
ENSG00000104859.13,CLASRPESCADocetaxelEAG2.4724e-04-0.3412image
chr19:45065115-45066631:+ESCADocetaxelEER4.5215e-03-0.2803image
ENSG00000104859.13,CLASRPGBMABT.888EAG3.3617e-020.3041image
chr19:45065115-45066631:+GBMABT.888EER3.1531e-020.3076image
chr19:45065115-45066631:+KIRCCGP.60474EER5.5783e-040.5538image
ENSG00000104859.13,CLASRPKIRCCGP.60474EAG1.3068e-040.5811image
ENSG00000104859.13,CLASRPLAMLCI.1040EAG2.0143e-030.3179image
chr19:45065115-45066631:+LAMLBMS.536924EER1.3919e-020.3768image
ENSG00000104859.13,CLASRPLGGMidostaurinEAG8.1559e-030.3358image
chr19:45065115-45066631:+LGGMidostaurinEER8.1817e-030.3356image
ENSG00000104859.13,CLASRPLUSCMidostaurinEAG1.7184e-020.3895image
ENSG00000104859.13,CLASRPOVEmbelinEAG1.9870e-020.2041image
chr19:45040755-45043346:+OVBIBW2992EER6.5611e-03-0.4706image
chr19:45065115-45066631:+OVBicalutamideEER1.9867e-020.2057image
ENSG00000104859.13,CLASRPSKCMBexaroteneEAG8.5738e-03-0.4437image
chr19:45065115-45066631:+SKCMBexaroteneEER8.3311e-03-0.4452image
chr19:45040755-45043346:+STADBMS.536924EER1.1262e-02-0.2874image
chr19:45065115-45066631:+STADBX.795EER4.5696e-030.2033image
ENSG00000104859.13,CLASRPSTADBX.795EAG7.7930e-030.1814image
ENSG00000104859.13,CLASRPTGCTBortezomibEAG4.4843e-02-0.3318image
chr19:45065115-45066631:+TGCTBortezomibEER4.4843e-02-0.3318image


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