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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: TTLL3 (ImmuneEditome ID:26140)

1. Gene summary of enriched editing regions for TTLL3

check button Gene summary
Gene informationGene symbol

TTLL3

Gene ID

26140

GeneSynonymsHOTTL
GeneCytomap

3p25.3

GeneTypeprotein-coding
GeneDescriptiontubulin monoglycylase TTLL3|tubulin tyrosine ligase-like family, member 3|tubulin--tyrosine ligase-like protein 3
GeneModificationdate20230329
UniprotIDQ9Y4R7;C9JNK2;C9JSD3;R4GN12;C9JQ30;C9JW59;F8WBP6;C9JZ73;C9JWZ9;E5RGZ6;F8WD18;C9JKU2;C9JUK0;A0A8I5KXU2;C9JNK7;C9IZU0;H0Y5E3;C9JRM2
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr3:9813438-9815239:+ENST00000459758.4ENSG00000214021.14TTLL3ncRNA_intronicMIR,MADE2,AluSx1,MIR1_Amn,AluSz,AluJr,AluSxchr3:9813438-9815239:+.alignment
chr3:9813438-9815239:+ENST00000483051.4ENSG00000214021.14TTLL3ncRNA_intronicMIR,MADE2,AluSx1,MIR1_Amn,AluSz,AluJr,AluSxchr3:9813438-9815239:+.alignment
chr3:9813438-9815239:+ENST00000496526.4ENSG00000214021.14TTLL3ncRNA_intronicMIR,MADE2,AluSx1,MIR1_Amn,AluSz,AluJr,AluSxchr3:9813438-9815239:+.alignment
chr3:9816537-9817352:+ENST00000459758.4ENSG00000214021.14TTLL3ncRNA_intronicAluSx,FLAM_C,AluY,MIRchr3:9816537-9817352:+.alignment
chr3:9816537-9817352:+ENST00000483051.4ENSG00000214021.14TTLL3ncRNA_intronicAluSx,FLAM_C,AluY,MIRchr3:9816537-9817352:+.alignment
chr3:9816537-9817352:+ENST00000496526.4ENSG00000214021.14TTLL3ncRNA_intronicAluSx,FLAM_C,AluY,MIRchr3:9816537-9817352:+.alignment
chr3:9818400-9818691:+ENST00000427220.4ENSG00000214021.14TTLL3exonicAluYchr3:9818400-9818691:+.alignment
chr3:9818400-9818691:+ENST00000474948.4ENSG00000214021.14TTLL3exonicAluYchr3:9818400-9818691:+.alignment
chr3:9818400-9818691:+ENST00000496246.4ENSG00000214021.14TTLL3exonicAluYchr3:9818400-9818691:+.alignment
chr3:9827433-9828112:+ENST00000492440.1ENSG00000214021.14TTLL3ncRNA_exonicAluSx1,L2a,AluJbchr3:9827433-9828112:+.alignment
chr3:9833886-9834081:+ENST00000483051.4ENSG00000214021.14TTLL3ncRNA_intronicAluSq2chr3:9833886-9834081:+.alignment
chr3:9833886-9834081:+ENST00000496526.4ENSG00000214021.14TTLL3ncRNA_intronicAluSq2chr3:9833886-9834081:+.alignment
chr3:9836059-9836219:+ENST00000483051.4ENSG00000214021.14TTLL3ncRNA_exonicAluJbchr3:9836059-9836219:+.alignment


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2. Tumor-specific enriched editing regions for TTLL3


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
ENSG00000214021.14,TTLL3LUSCEAG1.7980e-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
ENSG00000214021.14,TTLL3ESCAPathEAG2.1841e-021.1804e-020.2522image
ENSG00000214021.14,TTLL3KIRCPathEAG9.2158e-034.3234e-020.1449image


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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
ENSG00000214021.14,TTLL3SARCEAG1.7338e-021.6012e-021.4038e+02image

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3. Enriched editing regions and immune related genes for TTLL3


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 TTLL3


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 TTLL3


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
chr3:9818400-9818691:+BLCAEERB_cells_naive1.6160e-020.2587image
chr3:9827433-9828112:+BLCAEERMacrophages_M13.4610e-020.4080image
chr3:9836059-9836219:+BLCAEERT_cells_CD4_memory_activated2.2698e-030.3196image
ENSG00000214021.14,TTLL3BLCAEAGMacrophages_M14.5039e-020.1572image
ENSG00000214021.14,TTLL3BRCAEAGT_cells_regulatory_(Tregs)4.3371e-03-0.1370image
chr3:9827433-9828112:+COADEERNeutrophils6.5174e-030.5503image
ENSG00000214021.14,TTLL3COADEAGT_cells_CD81.1617e-020.3022image
ENSG00000214021.14,TTLL3DLBCEAGT_cells_CD81.8754e-02-0.5079image
chr3:9813438-9815239:+ESCAEERT_cells_CD82.7210e-030.3744image
chr3:9827433-9828112:+ESCAEERNK_cells_activated3.8295e-020.2882image
ENSG00000214021.14,TTLL3ESCAEAGMacrophages_M23.4806e-020.1997image
ENSG00000214021.14,TTLL3GBMEAGMacrophages_M01.0350e-020.2208image
chr3:9827433-9828112:+KIRCEERT_cells_regulatory_(Tregs)2.8433e-020.3706image
ENSG00000214021.14,TTLL3KIRCEAGDendritic_cells_activated5.6903e-030.2431image
chr3:9827433-9828112:+KIRPEERMacrophages_M03.0554e-020.3302image
ENSG00000214021.14,TTLL3KIRPEAGB_cells_memory2.9205e-030.2524image
chr3:9813438-9815239:+LAMLEERNK_cells_activated2.5260e-060.5957image
chr3:9827433-9828112:+LAMLEERNK_cells_activated1.0805e-02-0.2246image
ENSG00000214021.14,TTLL3LAMLEAGMast_cells_resting3.1937e-020.1814image
chr3:9827433-9828112:+LGGEERT_cells_gamma_delta1.0047e-020.3759image
ENSG00000214021.14,TTLL3LIHCEAGT_cells_gamma_delta2.4482e-030.5588image
ENSG00000214021.14,TTLL3LUADEAGT_cells_CD4_memory_activated7.2748e-050.3255image
ENSG00000214021.14,TTLL3LUSCEAGT_cells_CD83.3819e-02-0.2347image
chr3:9813438-9815239:+OVEERT_cells_follicular_helper9.0574e-03-0.2434image
chr3:9827433-9828112:+OVEERMacrophages_M04.1953e-020.2173image
ENSG00000214021.14,TTLL3PAADEAGNK_cells_resting2.3890e-040.3821image
ENSG00000214021.14,TTLL3PCPGEAGNeutrophils2.7167e-020.2304image
ENSG00000214021.14,TTLL3PRADEAGT_cells_CD4_memory_resting1.8833e-040.3231image
ENSG00000214021.14,TTLL3SARCEAGMast_cells_resting2.4990e-040.3137image
ENSG00000214021.14,TTLL3SKCMEAGMacrophages_M04.4978e-020.1804image
chr3:9813438-9815239:+STADEERNeutrophils2.4699e-030.2980image
ENSG00000214021.14,TTLL3TGCTEAGT_cells_CD4_naive3.3234e-020.2645image
chr3:9827433-9828112:+THCAEERMacrophages_M13.7374e-020.3533image
ENSG00000214021.14,TTLL3THYMEAGB_cells_memory2.8646e-020.2827image
ENSG00000214021.14,TTLL3UCECEAGT_cells_CD86.9459e-03-0.3422image


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6. Enriched editing regions and immune gene sets for TTLL3


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
chr3:9827433-9828112:+BLCAGSVA_HALLMARK_PEROXISOMEEER6.3160e-05-0.6923image
chr3:9836059-9836219:+BLCAGSVA_HALLMARK_COMPLEMENTEER6.0369e-050.4120image
chr3:9818400-9818691:+BLCAGSVA_HALLMARK_KRAS_SIGNALING_DNEER1.6215e-030.3349image
ENSG00000214021.14,TTLL3BLCAGSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATIONEAG3.9654e-04-0.2742image
ENSG00000214021.14,TTLL3BRCAGSVA_HALLMARK_UV_RESPONSE_DNEAG2.1365e-050.2029image
chr3:9827433-9828112:+BRCAGSVA_HALLMARK_KRAS_SIGNALING_DNEER3.2633e-020.2834image
ENSG00000214021.14,TTLL3CESCGSVA_HALLMARK_PROTEIN_SECRETIONEAG1.1827e-020.2952image
chr3:9827433-9828112:+COADGSVA_HALLMARK_NOTCH_SIGNALINGEER9.5341e-03-0.5285image
ENSG00000214021.14,TTLL3COADGSVA_HALLMARK_NOTCH_SIGNALINGEAG3.9782e-03-0.3424image
ENSG00000214021.14,TTLL3DLBCGSVA_HALLMARK_MTORC1_SIGNALINGEAG3.3171e-020.4662image
ENSG00000214021.14,TTLL3ESCAGSVA_HALLMARK_MITOTIC_SPINDLEEAG1.2212e-02-0.2361image
chr3:9827433-9828112:+GBMGSVA_HALLMARK_ESTROGEN_RESPONSE_LATEEER3.2932e-020.3468image
ENSG00000214021.14,TTLL3GBMGSVA_HALLMARK_MITOTIC_SPINDLEEAG1.6087e-030.2699image
ENSG00000214021.14,TTLL3HNSCGSVA_HALLMARK_ESTROGEN_RESPONSE_LATEEAG1.6714e-020.4935image
chr3:9818400-9818691:+KIRCGSVA_HALLMARK_PANCREAS_BETA_CELLSEER2.3088e-030.2971image
ENSG00000214021.14,TTLL3KIRCGSVA_HALLMARK_MYOGENESISEAG2.3388e-02-0.2003image
chr3:9827433-9828112:+KIRPGSVA_HALLMARK_MYC_TARGETS_V2EER2.1311e-020.3502image
ENSG00000214021.14,TTLL3KIRPGSVA_HALLMARK_MYOGENESISEAG4.8905e-03-0.2391image
ENSG00000214021.14,TTLL3LAMLGSVA_HALLMARK_SPERMATOGENESISEAG5.2207e-040.2895image
chr3:9813438-9815239:+LAMLGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEER4.1727e-02-0.2807image
chr3:9827433-9828112:+LAMLGSVA_HALLMARK_PANCREAS_BETA_CELLSEER7.7215e-030.2345image
ENSG00000214021.14,TTLL3LGGGSVA_HALLMARK_UV_RESPONSE_DNEAG8.1398e-090.2871image
ENSG00000214021.14,TTLL3LIHCGSVA_HALLMARK_FATTY_ACID_METABOLISMEAG3.0416e-030.5487image
ENSG00000214021.14,TTLL3LUADGSVA_HALLMARK_G2M_CHECKPOINTEAG6.8881e-040.2806image
ENSG00000214021.14,TTLL3LUSCGSVA_HALLMARK_MTORC1_SIGNALINGEAG2.7417e-030.3267image
ENSG00000214021.14,TTLL3MESOGSVA_HALLMARK_SPERMATOGENESISEAG3.4724e-020.3088image
ENSG00000214021.14,TTLL3OVGSVA_HALLMARK_ANDROGEN_RESPONSEEAG9.1158e-030.1762image
chr3:9813438-9815239:+OVGSVA_HALLMARK_PANCREAS_BETA_CELLSEER1.6126e-030.2921image
ENSG00000214021.14,TTLL3PAADGSVA_HALLMARK_PROTEIN_SECRETIONEAG3.0887e-030.3120image
ENSG00000214021.14,TTLL3PCPGGSVA_HALLMARK_MITOTIC_SPINDLEEAG1.6246e-020.2500image
ENSG00000214021.14,TTLL3PRADGSVA_HALLMARK_UV_RESPONSE_DNEAG9.5330e-050.3368image
chr3:9818400-9818691:+SARCGSVA_HALLMARK_DNA_REPAIREER1.2985e-020.2733image
ENSG00000214021.14,TTLL3SARCGSVA_HALLMARK_UV_RESPONSE_DNEAG1.4923e-030.2738image
ENSG00000214021.14,TTLL3SKCMGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG2.2376e-050.3708image
chr3:9827433-9828112:+STADGSVA_HALLMARK_PROTEIN_SECRETIONEER6.7971e-060.4126image
ENSG00000214021.14,TTLL3TGCTGSVA_HALLMARK_DNA_REPAIREAG2.0536e-02-0.2868image
chr3:9827433-9828112:+THCAGSVA_HALLMARK_CHOLESTEROL_HOMEOSTASISEER1.7490e-020.3993image
ENSG00000214021.14,TTLL3THCAGSVA_HALLMARK_ANDROGEN_RESPONSEEAG1.0284e-020.1580image
ENSG00000214021.14,TTLL3THYMGSVA_HALLMARK_UV_RESPONSE_UPEAG9.0777e-03-0.3341image
ENSG00000214021.14,TTLL3UCECGSVA_HALLMARK_MITOTIC_SPINDLEEAG2.2265e-020.2923image
ENSG00000214021.14,TTLL3UCSGSVA_HALLMARK_PROTEIN_SECRETIONEAG1.0249e-020.5599image


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7. Enriched editing regions and drugs for TTLL3


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
chr3:9836059-9836219:+BLCAGDC0941EER1.0701e-05-0.4480image
chr3:9818400-9818691:+BLCAGSK269962AEER1.2936e-06-0.4946image
ENSG00000214021.14,TTLL3BLCAAZD6482EAG4.9830e-04-0.2697image
chr3:9827433-9828112:+BLCABleomycinEER2.5938e-03-0.5561image
ENSG00000214021.14,TTLL3BRCAAZD6482EAG3.9802e-07-0.2413image
ENSG00000214021.14,TTLL3CESCLapatinibEAG5.2474e-04-0.3986image
ENSG00000214021.14,TTLL3COADBortezomibEAG9.2698e-030.3111image
chr3:9827433-9828112:+COADBMS.754807EER5.0391e-040.6674image
ENSG00000214021.14,TTLL3DLBCMG.132EAG3.1278e-020.4707image
chr3:9827433-9828112:+ESCAMetforminEER3.9035e-02-0.2871image
chr3:9813438-9815239:+ESCABMS.708163EER1.5990e-030.3926image
ENSG00000214021.14,TTLL3ESCAAZD8055EAG5.8080e-03-0.2591image
ENSG00000214021.14,TTLL3GBMBMS.536924EAG9.8729e-030.2222image
chr3:9827433-9828112:+GBMCEP.701EER3.8662e-020.3368image
chr3:9818400-9818691:+KIRCJNK.Inhibitor.VIIIEER1.8694e-030.3029image
chr3:9827433-9828112:+KIRCBX.795EER1.6229e-020.4035image
ENSG00000214021.14,TTLL3KIRCDocetaxelEAG2.5993e-040.3175image
chr3:9827433-9828112:+KIRPGW843682XEER4.2725e-03-0.4272image
ENSG00000214021.14,TTLL3KIRPBMS.754807EAG1.8595e-020.2009image
ENSG00000214021.14,TTLL3LAMLLFM.A13EAG3.5198e-040.2978image
chr3:9827433-9828112:+LAMLCHIR.99021EER9.4146e-030.2287image
chr3:9813438-9815239:+LAMLCisplatinEER1.8512e-03-0.4178image
chr3:9827433-9828112:+LGGMethotrexateEER3.3129e-02-0.3148image
ENSG00000214021.14,TTLL3LGGBMS.536924EAG3.2587e-080.2760image
ENSG00000214021.14,TTLL3LIHCErlotinibEAG2.7124e-02-0.4506image
ENSG00000214021.14,TTLL3LUADGemcitabineEAG1.2511e-04-0.3153image
ENSG00000214021.14,TTLL3LUSCCisplatinEAG1.8298e-02-0.2601image
ENSG00000214021.14,TTLL3MESOCCT018159EAG1.3684e-020.3573image
ENSG00000214021.14,TTLL3OVLenalidomideEAG1.8214e-020.1598image
chr3:9813438-9815239:+OVBMS.536924EER2.1640e-04-0.3398image
chr3:9827433-9828112:+OVDMOGEER4.8023e-020.2114image
ENSG00000214021.14,TTLL3PAADCyclopamineEAG2.9666e-020.2333image
ENSG00000214021.14,TTLL3PCPGCamptothecinEAG8.4460e-040.3421image
ENSG00000214021.14,TTLL3PRADCCT007093EAG1.6068e-06-0.4079image
ENSG00000214021.14,TTLL3SARCAZD6482EAG8.8744e-05-0.3345image
chr3:9818400-9818691:+SARCJW.7.52.1EER8.6601e-03-0.2882image
ENSG00000214021.14,TTLL3SKCMAZD6244EAG4.9429e-020.1768image
chr3:9827433-9828112:+STADCMKEER1.4109e-030.2994image
chr3:9813438-9815239:+STADBAY.61.3606EER8.2363e-060.4275image
ENSG00000214021.14,TTLL3STADBIBW2992EAG3.1484e-03-0.2000image
ENSG00000214021.14,TTLL3TGCTAZD6482EAG1.4193e-02-0.3029image
chr3:9818400-9818691:+TGCTGefitinibEER8.5507e-03-0.4377image
ENSG00000214021.14,TTLL3THCAA.770041EAG9.3417e-050.2386image
chr3:9827433-9828112:+THCALFM.A13EER1.1734e-020.4212image
ENSG00000214021.14,TTLL3THYMMG.132EAG3.8641e-020.2677image
ENSG00000214021.14,TTLL3UCECEHT.1864EAG4.5986e-030.3581image
ENSG00000214021.14,TTLL3UCSBMS.754807EAG2.2393e-020.5074image


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