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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: SHC1 (ImmuneEditome ID:6464)

1. Gene summary of enriched editing regions for SHC1

check button Gene summary
Gene informationGene symbol

SHC1

Gene ID

6464

GeneSynonymsSHC|SHCA
GeneCytomap

1q21.3

GeneTypeprotein-coding
GeneDescriptionSHC-transforming protein 1|SH2 domain protein C1|SHC (Src homology 2 domain containing) transforming protein 1|SHC-transforming protein 3|SHC-transforming protein A
GeneModificationdate20230517
UniprotIDP29353;X6R6D0;Q5T182;Q5T187;Q5T188;Q5T181
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr1:154964294-154965146:-ENST00000444664.4ENSG00000160691.17SHC1exonicAluJb,AluJr4,MIR3,AluSx1chr1:154964294-154965146:-.alignment


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2. Tumor-specific enriched editing regions for SHC1


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
chr1:154964294-154965146:-BRCAEER2.1880e-02image
ENSG00000160691.17,SHC1BRCAEAG4.0599e-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
ENSG00000160691.17,SHC1ESCAPathEAG2.0766e-021.7197e-020.2154image
chr1:154964294-154965146:-ESCAPathEER9.6693e-032.7847e-020.2017image


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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 SHC1


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
chr1:154964294-154965146:-ESCAEERENSG00000089012,SIRPG0.32322.3259e-021.9569e-060.4048imageNIGF2BP2;NOP58SIRPGT_cells_CD8GSVA_HALLMARK_ALLOGRAFT_REJECTION
chr1:154964294-154965146:-ESCAEERENSG00000164825,DEFB10.30963.7159e-021.5362e-060.4086imageNNDEFB1T_cells_follicular_helperGSVA_HALLMARK_MITOTIC_SPINDLE
chr1:154964294-154965146:-ESCAEERENSG00000125354,SEPT60.30324.1229e-027.7896e-070.4189imageNBUD13;EIF4A3;FBL;HNRNPA2B1;HNRNPM;IGF2BP2;NOP58;RBM10;SF3A3;SRSF1SEPT6Dendritic_cells_activatedGSVA_HALLMARK_ALLOGRAFT_REJECTION

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4. Enriched editing regions and immune related splicing for SHC1


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
ENSG00000160691.17,SHC1
PCPGEAGMEXENSG00000129197.10chr175422768:5422829:5425970:5426071:5426178:5426299:5432541:5432608-0.33053.3107e-021.3409e-06-0.4021imageNACIN1;ADAR;ALYREF;AUH;BCCIP;BUD13;CAPRIN1;CELF2;CNBP;CPSF6;CSTF2T;DDX3X;DDX42;DDX54;DGCR8;DHX9;DKC1;EIF4A3;EIF4G2;ELAVL1;FAM120A;FBL;FKBP4;FMR1;FUS;FXR1;GNL3;GTF2F1;HNRNPA1;HNRNPA2B1;HNRNPC;HNRNPK;HNRNPL;HNRNPM;HNRNPU;HNRNPUL1;IGF2BP1;IGF2BP2;IGF2BP3;ILF3;KHDRBS1;KHSRP;LARP4B;LARP7;LIN28;LIN28A;LIN28B;LSM11;MOV10;MSI1;NONO;NOP56;NOP58;NUMA1;PCBP2;PRPF8;PTBP1;RANGAP1;RBFOX2;RBM10;RBM22;RBM27;RBM47;RNF219;RTCB;SAFB2;SF3A3;SF3B4;SLTM;SMNDC1;SND1;SRSF1;SRSF10;SRSF3;SRSF7;SRSF9;TAF15;TARDBP;TIA1;TIAL1;TRA2A;TROVE2;U2AF1;U2AF2;UPF1;XRN2;YTHDF1;ZNF184NAPlasma_cellsGSVA_HALLMARK_MITOTIC_SPINDLE

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5. Enriched editing regions and immune infiltration for SHC1


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
ENSG00000160691.17,SHC1BLCAEAGMonocytes4.8250e-030.2448image
ENSG00000160691.17,SHC1COADEAGNK_cells_resting1.9601e-02-0.3228image
chr1:154964294-154965146:-ESCAEERT_cells_CD85.3283e-050.3480image
ENSG00000160691.17,SHC1ESCAEAGT_cells_CD81.3394e-040.3264image
ENSG00000160691.17,SHC1GBMEAGT_cells_regulatory_(Tregs)3.1909e-020.2549image
ENSG00000160691.17,SHC1KIRCEAGT_cells_CD4_memory_activated1.5743e-020.1741image
ENSG00000160691.17,SHC1KIRPEAGT_cells_CD4_memory_activated4.3164e-030.4911image
ENSG00000160691.17,SHC1LGGEAGB_cells_memory2.0463e-020.2827image
ENSG00000160691.17,SHC1LIHCEAGT_cells_follicular_helper4.8088e-020.1982image
ENSG00000160691.17,SHC1LUADEAGNeutrophils4.2091e-02-0.1274image
ENSG00000160691.17,SHC1MESOEAGB_cells_naive1.2626e-020.4573image
chr1:154964294-154965146:-OVEERT_cells_regulatory_(Tregs)7.7515e-030.2335image
ENSG00000160691.17,SHC1OVEAGT_cells_regulatory_(Tregs)9.6801e-030.2187image
ENSG00000160691.17,SHC1PAADEAGT_cells_CD4_memory_resting2.5031e-02-0.2570image
chr1:154964294-154965146:-PCPGEERB_cells_naive1.9973e-020.2055image
ENSG00000160691.17,SHC1PRADEAGT_cells_CD4_memory_activated8.3486e-030.3322image
ENSG00000160691.17,SHC1SARCEAGT_cells_CD81.8876e-020.2928image
ENSG00000160691.17,SHC1SKCMEAGT_cells_follicular_helper1.0563e-020.1804image
chr1:154964294-154965146:-STADEERT_cells_gamma_delta4.3630e-030.2346image
ENSG00000160691.17,SHC1STADEAGT_cells_gamma_delta8.6593e-030.2089image
ENSG00000160691.17,SHC1THCAEAGDendritic_cells_resting5.9931e-030.2548image
ENSG00000160691.17,SHC1THYMEAGT_cells_CD4_memory_activated4.0843e-020.4037image


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6. Enriched editing regions and immune gene sets for SHC1


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
chr1:154964294-154965146:-BRCAGSVA_HALLMARK_PANCREAS_BETA_CELLSEER8.8007e-030.1268image
ENSG00000160691.17,SHC1BRCAGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG8.9266e-030.1233image
ENSG00000160691.17,SHC1CESCGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG3.1864e-02-0.2925image
chr1:154964294-154965146:-CHOLGSVA_HALLMARK_G2M_CHECKPOINTEER2.3915e-02-0.4416image
ENSG00000160691.17,SHC1CHOLGSVA_HALLMARK_G2M_CHECKPOINTEAG1.2415e-02-0.4744image
ENSG00000160691.17,SHC1COADGSVA_HALLMARK_PROTEIN_SECRETIONEAG4.2335e-030.3903image
ENSG00000160691.17,SHC1ESCAGSVA_HALLMARK_MITOTIC_SPINDLEEAG4.3845e-02-0.1757image
chr1:154964294-154965146:-ESCAGSVA_HALLMARK_MITOTIC_SPINDLEEER4.0050e-03-0.2517image
ENSG00000160691.17,SHC1HNSCGSVA_HALLMARK_UV_RESPONSE_UPEAG3.6000e-02-0.2320image
ENSG00000160691.17,SHC1KIRCGSVA_HALLMARK_SPERMATOGENESISEAG4.6811e-040.2501image
chr1:154964294-154965146:-KIRCGSVA_HALLMARK_SPERMATOGENESISEER2.3023e-030.2222image
ENSG00000160691.17,SHC1KIRPGSVA_HALLMARK_NOTCH_SIGNALINGEAG1.5425e-02-0.4246image
ENSG00000160691.17,SHC1LAMLGSVA_HALLMARK_KRAS_SIGNALING_DNEAG3.1214e-02-0.2857image
ENSG00000160691.17,SHC1LGGGSVA_HALLMARK_MITOTIC_SPINDLEEAG1.2085e-02-0.3050image
chr1:154964294-154965146:-LIHCGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEER1.7823e-030.3285image
ENSG00000160691.17,SHC1LIHCGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEAG4.5999e-030.2812image
ENSG00000160691.17,SHC1LUADGSVA_HALLMARK_PI3K_AKT_MTOR_SIGNALINGEAG1.2697e-020.1559image
chr1:154964294-154965146:-LUSCGSVA_HALLMARK_SPERMATOGENESISEER4.1457e-030.1688image
ENSG00000160691.17,SHC1LUSCGSVA_HALLMARK_SPERMATOGENESISEAG4.5020e-030.1638image
ENSG00000160691.17,SHC1MESOGSVA_HALLMARK_KRAS_SIGNALING_DNEAG6.3142e-030.4952image
ENSG00000160691.17,SHC1OVGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEAG1.7285e-060.3928image
chr1:154964294-154965146:-OVGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEER8.6240e-070.4174image
ENSG00000160691.17,SHC1PCPGGSVA_HALLMARK_G2M_CHECKPOINTEAG2.7620e-03-0.2557image
chr1:154964294-154965146:-PCPGGSVA_HALLMARK_G2M_CHECKPOINTEER1.2761e-02-0.2196image
chr1:154964294-154965146:-SKCMGSVA_HALLMARK_PI3K_AKT_MTOR_SIGNALINGEER4.7433e-020.1501image
ENSG00000160691.17,SHC1THCAGSVA_HALLMARK_ANDROGEN_RESPONSEEAG6.1406e-040.3147image
ENSG00000160691.17,SHC1THYMGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG2.0268e-030.5770image


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7. Enriched editing regions and drugs for SHC1


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
ENSG00000160691.17,SHC1BLCAIPA.3EAG2.0690e-020.2020image
chr1:154964294-154965146:-BRCAEpothilone.BEER2.5461e-020.1082image
ENSG00000160691.17,SHC1CESCMidostaurinEAG7.8843e-030.3579image
chr1:154964294-154965146:-CHOLAZD.2281EER6.5254e-04-0.6243image
ENSG00000160691.17,SHC1CHOLAZD.2281EAG4.8598e-04-0.6254image
ENSG00000160691.17,SHC1COADMethotrexateEAG1.4867e-020.3360image
ENSG00000160691.17,SHC1ESCAJW.7.52.1EAG8.0258e-03-0.2298image
chr1:154964294-154965146:-ESCADasatinibEER1.6153e-02-0.2114image
ENSG00000160691.17,SHC1HNSCBAY.61.3606EAG1.3529e-02-0.2717image
ENSG00000160691.17,SHC1KIRCBicalutamideEAG2.0784e-02-0.1668image
chr1:154964294-154965146:-KIRCAG.014699EER3.3586e-020.1559image
ENSG00000160691.17,SHC1KIRPGW.441756EAG2.4080e-02-0.3980image
ENSG00000160691.17,SHC1LAMLBortezomibEAG2.0768e-020.3057image
ENSG00000160691.17,SHC1LGGFH535EAG3.0085e-020.2652image
chr1:154964294-154965146:-LIHCLFM.A13EER4.5056e-020.2142image
chr1:154964294-154965146:-LUADBMS.708163EER2.7240e-020.1422image
ENSG00000160691.17,SHC1LUADGNF.2EAG2.5909e-02-0.1395image
chr1:154964294-154965146:-LUSCGW.441756EER1.3108e-03-0.1888image
ENSG00000160691.17,SHC1LUSCGW.441756EAG2.5992e-03-0.1736image
ENSG00000160691.17,SHC1MESOCCT007093EAG2.0096e-02-0.4294image
ENSG00000160691.17,SHC1OVBexaroteneEAG6.9197e-040.2844image
chr1:154964294-154965146:-OVBexaroteneEER2.5187e-030.2638image
ENSG00000160691.17,SHC1PAADGDC.0449EAG3.6555e-03-0.3295image
ENSG00000160691.17,SHC1PCPGBI.D1870EAG6.2556e-050.3375image
chr1:154964294-154965146:-PCPGGW.441756EER3.5481e-03-0.2559image
ENSG00000160691.17,SHC1PRADBicalutamideEAG1.0514e-030.4063image
chr1:154964294-154965146:-SKCMBMS.754807EER2.4240e-020.1703image
ENSG00000160691.17,SHC1SKCMBexaroteneEAG1.0044e-020.1816image
ENSG00000160691.17,SHC1STADBI.D1870EAG2.3531e-030.2411image
chr1:154964294-154965146:-STADBI.D1870EER5.5103e-030.2286image
ENSG00000160691.17,SHC1THCABMS.708163EAG1.7756e-04-0.3427image
ENSG00000160691.17,SHC1THYMKU.55933EAG2.9915e-03-0.5590image


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