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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: TCP11L1 (ImmuneEditome ID:55346)

1. Gene summary of enriched editing regions for TCP11L1

check button Gene summary
Gene informationGene symbol

TCP11L1

Gene ID

55346

GeneSynonymsdJ85M6.3
GeneCytomap

11p13

GeneTypeprotein-coding
GeneDescriptionT-complex protein 11-like protein 1|t-complex 11, testis-specific-like 1
GeneModificationdate20230329
UniprotIDQ9NUJ3;E9PMB0;R4GNF5;E9PJ55;E9PP52;E9PS88
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr11:33042831-33043059:+ENST00000530171.4ENSG00000176148.14TCP11L1ncRNA_intronicAluSq4chr11:33042831-33043059:+.alignment
chr11:33042831-33043059:+ENST00000532687.4ENSG00000176148.14TCP11L1ncRNA_intronicAluSq4chr11:33042831-33043059:+.alignment
chr11:33074626-33075535:+ENST00000527661.4ENSG00000176148.14TCP11L1intronicAluJo,AluSg,(TTTA)nchr11:33074626-33075535:+.alignment
chr11:33074626-33075535:+ENST00000528962.1ENSG00000176148.14TCP11L1intronicAluJo,AluSg,(TTTA)nchr11:33074626-33075535:+.alignment


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2. Tumor-specific enriched editing regions for TCP11L1


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
chr11:33074626-33075535:+CESCCliEER1.9498e-022.5086e-02-0.2145image


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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 TCP11L1


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
chr11:33074626-33075535:+PCPGEERENSG00000266094,RASSF50.29392.0325e-025.5559e-070.4180imageNEIF4A3;HNRNPC;HNRNPL;UPF1NAMacrophages_M0GSVA_HALLMARK_PANCREAS_BETA_CELLS
chr11:33074626-33075535:+PCPGEERENSG00000266094,RASSF50.29392.0325e-025.5559e-070.4180imageNEIF4A3;HNRNPC;HNRNPL;UPF1NAMacrophages_M0GSVA_HALLMARK_PANCREAS_BETA_CELLS

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4. Enriched editing regions and immune related splicing for TCP11L1


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
ENSG00000176148.14,TCP11L1
ESCAEAGA5ENSG00000072518.16chr1163895158:63895226:63888695:63888964:63888695:638902950.30142.9110e-024.2559e-060.4027imageNADAR;AIFM1;BCCIP;BUD13;CELF2;CNBP;CPSF6;CSTF2T;DDX3X;DDX42;DDX54;DGCR8;DHX9;DICER1;DKC1;EIF4A3;EIF4G2;ELAVL1;ELAVL3;EWSR1;FAM120A;FBL;FMR1;FUS;FXR1;FXR2;GNL3;GTF2F1;HNRNPA1;HNRNPA2B1;HNRNPC;HNRNPK;HNRNPL;HNRNPM;HNRNPUL1;IGF2BP1;IGF2BP2;IGF2BP3;ILF3;KHDRBS1;KHDRBS2;KHSRP;LIN28;LIN28A;LIN28B;LSM11;MBNL2;MOV10;MSI2;NOP56;NOP58;NUMA1;PCBP2;PRPF8;PTBP1;QKI;RANGAP1;RBFOX2;RBM10;RBM47;SF3A3;SF3B4;SLTM;SMNDC1;SND1;SRSF1;SRSF10;SRSF3;SRSF7;SRSF9;TAF15;TARDBP;TIA1;TIAL1;TRA2A;TROVE2;U2AF1;U2AF2;UPF1;VIM;XRN2;YTHDC1;YTHDF1;ZC3H7B;ZNF184MARK2Dendritic_cells_restingGSVA_HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION
chr11:33074626-33075535:+
ESCAEERA5ENSG00000072518.16chr1163895158:63895226:63888695:63888964:63888695:638902950.30272.3231e-024.9878e-060.4000imageNEIF4A3;HNRNPC;HNRNPL;UPF1MARK2Dendritic_cells_restingGSVA_HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION

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5. Enriched editing regions and immune infiltration for TCP11L1


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
chr11:33074626-33075535:+BLCAEEREosinophils3.3888e-020.2145image
ENSG00000176148.14,TCP11L1BLCAEAGEosinophils2.8198e-020.2206image
chr11:33074626-33075535:+BRCAEERDendritic_cells_resting1.2229e-030.1362image
ENSG00000176148.14,TCP11L1BRCAEAGDendritic_cells_resting1.0369e-030.1379image
chr11:33074626-33075535:+ESCAEERT_cells_regulatory_(Tregs)1.2551e-020.2034image
ENSG00000176148.14,TCP11L1ESCAEAGT_cells_regulatory_(Tregs)1.1299e-020.2063image
chr11:33074626-33075535:+GBMEERNK_cells_resting3.7971e-02-0.2089image
ENSG00000176148.14,TCP11L1GBMEAGNK_cells_resting4.9431e-02-0.1970image
chr11:33074626-33075535:+HNSCEERMonocytes1.9665e-040.2211image
ENSG00000176148.14,TCP11L1HNSCEAGMonocytes2.2649e-040.2191image
chr11:33074626-33075535:+KIRCEERT_cells_CD4_naive4.1337e-020.1150image
ENSG00000176148.14,TCP11L1KIRCEAGMacrophages_M13.1400e-02-0.1211image
chr11:33074626-33075535:+LGGEERT_cells_regulatory_(Tregs)4.7838e-020.0921image
ENSG00000176148.14,TCP11L1LGGEAGT_cells_regulatory_(Tregs)1.9860e-020.1083image
chr11:33074626-33075535:+LIHCEERPlasma_cells1.8766e-030.5527image
ENSG00000176148.14,TCP11L1LIHCEAGPlasma_cells1.9777e-030.5504image
chr11:33074626-33075535:+LUSCEERT_cells_regulatory_(Tregs)8.1267e-030.1701image
ENSG00000176148.14,TCP11L1LUSCEAGT_cells_regulatory_(Tregs)8.9377e-030.1670image
chr11:33074626-33075535:+OVEERT_cells_follicular_helper3.0333e-02-0.2105image
ENSG00000176148.14,TCP11L1OVEAGT_cells_follicular_helper4.1699e-02-0.1954image
chr11:33074626-33075535:+PCPGEERT_cells_CD4_memory_activated1.1552e-020.2184image
ENSG00000176148.14,TCP11L1PCPGEAGT_cells_CD4_memory_activated7.0798e-030.2325image
chr11:33074626-33075535:+SARCEERT_cells_CD4_memory_resting1.5982e-020.2134image
ENSG00000176148.14,TCP11L1SARCEAGT_cells_CD4_memory_resting2.6358e-020.1956image
ENSG00000176148.14,TCP11L1SKCMEAGDendritic_cells_activated4.8142e-020.1251image
chr11:33074626-33075535:+STADEERT_cells_CD4_memory_resting7.0590e-03-0.1571image
ENSG00000176148.14,TCP11L1STADEAGT_cells_CD4_memory_resting1.5452e-03-0.1838image
ENSG00000176148.14,TCP11L1TGCTEAGT_cells_CD82.1756e-020.2958image
chr11:33074626-33075535:+THCAEERNK_cells_resting1.2622e-020.2605image
ENSG00000176148.14,TCP11L1THCAEAGNK_cells_resting1.2596e-020.2606image
chr11:33074626-33075535:+THYMEERT_cells_gamma_delta1.2672e-020.4496image
ENSG00000176148.14,TCP11L1THYMEAGT_cells_gamma_delta1.2676e-020.4496image


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6. Enriched editing regions and immune gene sets for TCP11L1


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
chr11:33074626-33075535:+BLCAGSVA_HALLMARK_MITOTIC_SPINDLEEER4.5065e-02-0.2029image
ENSG00000176148.14,TCP11L1BRCAGSVA_HALLMARK_BILE_ACID_METABOLISMEAG1.4547e-030.1339image
chr11:33074626-33075535:+BRCAGSVA_HALLMARK_BILE_ACID_METABOLISMEER1.3603e-030.1349image
ENSG00000176148.14,TCP11L1CESCGSVA_HALLMARK_ANDROGEN_RESPONSEEAG1.9771e-020.2220image
chr11:33074626-33075535:+CESCGSVA_HALLMARK_ESTROGEN_RESPONSE_EARLYEER1.3994e-020.2337image
chr11:33074626-33075535:+COADGSVA_HALLMARK_MITOTIC_SPINDLEEER1.2360e-02-0.3446image
ENSG00000176148.14,TCP11L1COADGSVA_HALLMARK_MITOTIC_SPINDLEEAG1.2331e-02-0.3415image
ENSG00000176148.14,TCP11L1ESCAGSVA_HALLMARK_HEDGEHOG_SIGNALINGEAG3.7259e-03-0.2355image
chr11:33074626-33075535:+ESCAGSVA_HALLMARK_HEDGEHOG_SIGNALINGEER3.0517e-03-0.2403image
ENSG00000176148.14,TCP11L1GBMGSVA_HALLMARK_MITOTIC_SPINDLEEAG5.7390e-03-0.2744image
chr11:33074626-33075535:+GBMGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEER2.7854e-03-0.2975image
chr11:33074626-33075535:+HNSCGSVA_HALLMARK_ADIPOGENESISEER4.3446e-050.2422image
ENSG00000176148.14,TCP11L1HNSCGSVA_HALLMARK_ADIPOGENESISEAG5.6145e-050.2388image
chr11:33074626-33075535:+KIRCGSVA_HALLMARK_MITOTIC_SPINDLEEER1.8516e-03-0.1747image
ENSG00000176148.14,TCP11L1KIRCGSVA_HALLMARK_MITOTIC_SPINDLEEAG1.3943e-03-0.1790image
ENSG00000176148.14,TCP11L1LGGGSVA_HALLMARK_P53_PATHWAYEAG3.4312e-030.1359image
chr11:33074626-33075535:+LGGGSVA_HALLMARK_P53_PATHWAYEER2.2710e-030.1417image
chr11:33074626-33075535:+LUSCGSVA_HALLMARK_PANCREAS_BETA_CELLSEER1.5005e-020.1565image
ENSG00000176148.14,TCP11L1LUSCGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG1.5620e-020.1546image
chr11:33074626-33075535:+OVGSVA_HALLMARK_PANCREAS_BETA_CELLSEER8.6065e-030.2540image
ENSG00000176148.14,TCP11L1OVGSVA_HALLMARK_PANCREAS_BETA_CELLSEAG1.4555e-020.2335image
ENSG00000176148.14,TCP11L1PCPGGSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAYEAG1.3333e-030.2754image
chr11:33074626-33075535:+PCPGGSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAYEER1.6131e-030.2709image
chr11:33074626-33075535:+PRADGSVA_HALLMARK_MYC_TARGETS_V2EER2.8022e-020.1711image
ENSG00000176148.14,TCP11L1PRADGSVA_HALLMARK_MYC_TARGETS_V2EAG4.2894e-020.1569image
chr11:33074626-33075535:+SARCGSVA_HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITIONEER4.6469e-02-0.1770image
ENSG00000176148.14,TCP11L1SKCMGSVA_HALLMARK_G2M_CHECKPOINTEAG3.0436e-03-0.1867image
chr11:33074626-33075535:+SKCMGSVA_HALLMARK_G2M_CHECKPOINTEER4.0907e-03-0.1810image
chr11:33074626-33075535:+STADGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEER1.5485e-030.1841image
ENSG00000176148.14,TCP11L1STADGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEAG1.1575e-030.1886image
ENSG00000176148.14,TCP11L1TGCTGSVA_HALLMARK_TGF_BETA_SIGNALINGEAG2.7480e-04-0.4534image
chr11:33074626-33075535:+THCAGSVA_HALLMARK_APICAL_SURFACEEER2.6921e-02-0.2320image
ENSG00000176148.14,TCP11L1THCAGSVA_HALLMARK_APICAL_SURFACEEAG2.6864e-02-0.2321image
ENSG00000176148.14,TCP11L1THYMGSVA_HALLMARK_INTERFERON_GAMMA_RESPONSEEAG2.8297e-020.4005image
chr11:33074626-33075535:+THYMGSVA_HALLMARK_INTERFERON_GAMMA_RESPONSEEER2.8894e-020.3991image


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7. Enriched editing regions and drugs for TCP11L1


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
chr11:33074626-33075535:+BRCAJNK.Inhibitor.VIIIEER1.1850e-020.1063image
ENSG00000176148.14,TCP11L1BRCAJNK.Inhibitor.VIIIEAG9.4664e-030.1094image
chr11:33074626-33075535:+CESCBexaroteneEER5.8421e-030.2612image
ENSG00000176148.14,TCP11L1CESCBexaroteneEAG6.1333e-030.2598image
ENSG00000176148.14,TCP11L1GBMBMS.536924EAG1.0868e-05-0.4243image
chr11:33074626-33075535:+GBMBMS.536924EER2.0202e-05-0.4143image
ENSG00000176148.14,TCP11L1HNSCLFM.A13EAG2.0004e-020.1392image
chr11:33074626-33075535:+HNSCLFM.A13EER1.6337e-020.1437image
ENSG00000176148.14,TCP11L1KIRCBAY.61.3606EAG4.1974e-040.1973image
chr11:33074626-33075535:+KIRCBAY.61.3606EER8.4996e-040.1870image
chr11:33074626-33075535:+KIRPMethotrexateEER4.4717e-02-0.1867image
ENSG00000176148.14,TCP11L1KIRPMethotrexateEAG4.3368e-02-0.1879image
ENSG00000176148.14,TCP11L1LGGGNF.2EAG3.2316e-06-0.2146image
chr11:33074626-33075535:+LGGGNF.2EER1.0022e-05-0.2039image
ENSG00000176148.14,TCP11L1LIHCCHIR.99021EAG2.1842e-03-0.6178image
chr11:33074626-33075535:+LIHCCHIR.99021EER2.1929e-03-0.6176image
ENSG00000176148.14,TCP11L1LUADBI.2536EAG4.4781e-040.2453image
chr11:33074626-33075535:+LUADBI.2536EER5.4008e-040.2425image
chr11:33074626-33075535:+LUSCEpothilone.BEER4.8191e-030.1810image
ENSG00000176148.14,TCP11L1LUSCGSK269962AEAG4.5283e-03-0.1812image
chr11:33074626-33075535:+OVA.770041EER2.1753e-02-0.2227image
ENSG00000176148.14,TCP11L1OVLenalidomideEAG2.8965e-020.2102image
chr11:33074626-33075535:+PAADErlotinibEER2.1819e-02-0.2798image
ENSG00000176148.14,TCP11L1PAADErlotinibEAG2.0947e-02-0.2816image
ENSG00000176148.14,TCP11L1PCPGJNJ.26854165EAG6.8364e-04-0.2908image
chr11:33074626-33075535:+PCPGJNJ.26854165EER2.2664e-03-0.2625image
chr11:33074626-33075535:+PRADGW843682XEER1.6594e-02-0.1863image
ENSG00000176148.14,TCP11L1PRADGW843682XEAG3.2715e-02-0.1654image
ENSG00000176148.14,TCP11L1SARCCCT018159EAG1.9205e-02-0.2059image
chr11:33074626-33075535:+SARCCCT018159EER9.1509e-03-0.2304image
ENSG00000176148.14,TCP11L1SKCMEtoposideEAG1.5544e-020.1529image
chr11:33074626-33075535:+SKCMEtoposideEER1.0820e-020.1609image
chr11:33074626-33075535:+STADAZ628EER7.3531e-04-0.1962image
ENSG00000176148.14,TCP11L1STADAZ628EAG1.0090e-03-0.1908image
ENSG00000176148.14,TCP11L1TGCTKU.55933EAG3.6544e-03-0.3696image
chr11:33074626-33075535:+THYMAG.014699EER3.8920e-020.3789image
ENSG00000176148.14,TCP11L1THYMAG.014699EAG3.9212e-020.3784image


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