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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: CHAF1B (ImmuneEditome ID:8208)

1. Gene summary of enriched editing regions for CHAF1B

check button Gene summary
Gene informationGene symbol

CHAF1B

Gene ID

8208

GeneSynonymsCAF-1|CAF-IP60|CAF1|CAF1A|CAF1P60|MPHOSPH7|MPP7
GeneCytomap

21q22.12-q22.13

GeneTypeprotein-coding
GeneDescriptionchromatin assembly factor 1 subunit B|CAF-1 subunit B|CAF-I 60 kDa subunit|CAF-I p60|M-phase phosphoprotein 7|chromatin assembly factor I p60 subunit|human chromatin assembly factor-I p60 subunit
GeneModificationdate20230404
UniprotIDQ13112
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr21:36417140-36418878:+ENST00000314103.5ENSG00000159259.7CHAF1BUTR3AluSx,AluJb,AluSz,(CA)n,MER5B,AluSgchr21:36417140-36418878:+.alignment


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2. Tumor-specific enriched editing regions for CHAF1B


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 CHAF1B


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 CHAF1B


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

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5. Enriched editing regions and immune infiltration for CHAF1B


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
chr21:36417140-36418878:+BLCAEERMast_cells_resting2.6845e-020.1913image
ENSG00000159259.7,CHAF1BBLCAEAGMast_cells_resting2.9036e-020.1880image
chr21:36417140-36418878:+BRCAEERMacrophages_M13.6594e-020.1048image
ENSG00000159259.7,CHAF1BBRCAEAGMacrophages_M12.9695e-020.1089image
chr21:36417140-36418878:+CESCEERMacrophages_M17.2993e-030.1842image
ENSG00000159259.7,CHAF1BCESCEAGMacrophages_M17.2215e-030.1844image
chr21:36417140-36418878:+COADEEREosinophils7.7405e-050.5390image
ENSG00000159259.7,CHAF1BCOADEAGEosinophils7.8184e-050.5387image
ENSG00000159259.7,CHAF1BDLBCEAGDendritic_cells_activated3.0725e-020.4243image
chr21:36417140-36418878:+ESCAEERNeutrophils4.5978e-02-0.1952image
ENSG00000159259.7,CHAF1BESCAEAGNeutrophils3.9015e-02-0.1999image
chr21:36417140-36418878:+GBMEERMast_cells_activated1.5091e-020.4713image
ENSG00000159259.7,CHAF1BGBMEAGMast_cells_activated1.5016e-020.4716image
chr21:36417140-36418878:+HNSCEERT_cells_regulatory_(Tregs)1.2703e-02-0.2617image
ENSG00000159259.7,CHAF1BHNSCEAGT_cells_regulatory_(Tregs)1.1220e-02-0.2662image
chr21:36417140-36418878:+LIHCEERT_cells_regulatory_(Tregs)1.0070e-020.3840image
ENSG00000159259.7,CHAF1BLIHCEAGT_cells_regulatory_(Tregs)1.0070e-020.3840image
chr21:36417140-36418878:+LUADEERMonocytes9.4586e-030.3271image
ENSG00000159259.7,CHAF1BLUADEAGMonocytes9.4586e-030.3271image
chr21:36417140-36418878:+LUSCEERT_cells_CD4_memory_resting9.2629e-03-0.3134image
ENSG00000159259.7,CHAF1BLUSCEAGT_cells_CD4_memory_resting9.2629e-03-0.3134image
chr21:36417140-36418878:+OVEERMonocytes3.1277e-020.1855image
ENSG00000159259.7,CHAF1BOVEAGMonocytes2.6831e-020.1906image
chr21:36417140-36418878:+PRADEERMacrophages_M03.0472e-02-0.3716image
ENSG00000159259.7,CHAF1BPRADEAGMacrophages_M03.0472e-02-0.3716image
chr21:36417140-36418878:+SARCEERPlasma_cells2.7336e-020.2253image
ENSG00000159259.7,CHAF1BSARCEAGPlasma_cells2.6416e-020.2266image
chr21:36417140-36418878:+SKCMEERT_cells_regulatory_(Tregs)1.7882e-020.1842image
ENSG00000159259.7,CHAF1BSKCMEAGT_cells_regulatory_(Tregs)1.7882e-020.1842image
chr21:36417140-36418878:+STADEERPlasma_cells1.9464e-02-0.1685image
ENSG00000159259.7,CHAF1BSTADEAGPlasma_cells2.1171e-02-0.1654image
chr21:36417140-36418878:+TGCTEERT_cells_CD84.3612e-020.1937image
ENSG00000159259.7,CHAF1BTGCTEAGT_cells_CD84.3612e-020.1937image
chr21:36417140-36418878:+THCAEERT_cells_gamma_delta1.0543e-030.5046image
ENSG00000159259.7,CHAF1BTHCAEAGT_cells_gamma_delta1.0543e-030.5046image
ENSG00000159259.7,CHAF1BTHYMEAGT_cells_regulatory_(Tregs)1.5503e-02-0.3087image
chr21:36417140-36418878:+UCECEERT_cells_gamma_delta4.6607e-020.2387image
ENSG00000159259.7,CHAF1BUCECEAGT_cells_gamma_delta4.7237e-020.2380image
chr21:36417140-36418878:+UCSEERNeutrophils7.2529e-030.4961image
ENSG00000159259.7,CHAF1BUCSEAGNeutrophils7.2529e-030.4961image


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6. Enriched editing regions and immune gene sets for CHAF1B


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
chr21:36417140-36418878:+BLCAGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEER3.3770e-030.2515image
ENSG00000159259.7,CHAF1BBLCAGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG4.6702e-030.2421image
chr21:36417140-36418878:+BRCAGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEER4.9257e-060.2267image
ENSG00000159259.7,CHAF1BBRCAGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG1.4164e-050.2155image
chr21:36417140-36418878:+CESCGSVA_HALLMARK_INFLAMMATORY_RESPONSEEER4.3671e-060.3102image
ENSG00000159259.7,CHAF1BCESCGSVA_HALLMARK_INFLAMMATORY_RESPONSEEAG4.3651e-060.3102image
chr21:36417140-36418878:+COADGSVA_HALLMARK_DNA_REPAIREER3.9483e-04-0.4910image
ENSG00000159259.7,CHAF1BCOADGSVA_HALLMARK_DNA_REPAIREAG3.8943e-04-0.4915image
ENSG00000159259.7,CHAF1BDLBCGSVA_HALLMARK_GLYCOLYSISEAG1.4909e-020.4720image
chr21:36417140-36418878:+GBMGSVA_HALLMARK_COMPLEMENTEER1.1475e-020.4878image
ENSG00000159259.7,CHAF1BGBMGSVA_HALLMARK_COMPLEMENTEAG1.1755e-020.4864image
ENSG00000159259.7,CHAF1BHNSCGSVA_HALLMARK_MYC_TARGETS_V2EAG5.1630e-040.3588image
chr21:36417140-36418878:+HNSCGSVA_HALLMARK_MYC_TARGETS_V2EER5.8321e-040.3556image
ENSG00000159259.7,CHAF1BLIHCGSVA_HALLMARK_BILE_ACID_METABOLISMEAG1.9910e-030.4535image
chr21:36417140-36418878:+LIHCGSVA_HALLMARK_BILE_ACID_METABOLISMEER1.9910e-030.4535image
chr21:36417140-36418878:+LUADGSVA_HALLMARK_IL2_STAT5_SIGNALINGEER4.5406e-020.2551image
ENSG00000159259.7,CHAF1BLUADGSVA_HALLMARK_IL2_STAT5_SIGNALINGEAG4.5406e-020.2551image
chr21:36417140-36418878:+LUSCGSVA_HALLMARK_NOTCH_SIGNALINGEER1.0478e-020.3085image
ENSG00000159259.7,CHAF1BLUSCGSVA_HALLMARK_NOTCH_SIGNALINGEAG1.0478e-020.3085image
chr21:36417140-36418878:+OVGSVA_HALLMARK_MITOTIC_SPINDLEEER1.0244e-06-0.4061image
ENSG00000159259.7,CHAF1BOVGSVA_HALLMARK_MITOTIC_SPINDLEEAG6.2099e-07-0.4135image
ENSG00000159259.7,CHAF1BPRADGSVA_HALLMARK_ANGIOGENESISEAG1.1647e-030.5333image
chr21:36417140-36418878:+PRADGSVA_HALLMARK_ANGIOGENESISEER1.1647e-030.5333image
ENSG00000159259.7,CHAF1BSARCGSVA_HALLMARK_E2F_TARGETSEAG4.9210e-04-0.3490image
chr21:36417140-36418878:+SARCGSVA_HALLMARK_E2F_TARGETSEER5.2574e-04-0.3473image
ENSG00000159259.7,CHAF1BSKCMGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG4.0451e-030.2227image
chr21:36417140-36418878:+SKCMGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEER4.0451e-030.2227image
chr21:36417140-36418878:+STADGSVA_HALLMARK_COAGULATIONEER3.5835e-030.2092image
ENSG00000159259.7,CHAF1BSTADGSVA_HALLMARK_KRAS_SIGNALING_DNEAG2.7599e-020.1582image
chr21:36417140-36418878:+TGCTGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEER8.0718e-030.2525image
ENSG00000159259.7,CHAF1BTGCTGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG8.0718e-030.2525image
ENSG00000159259.7,CHAF1BTHYMGSVA_HALLMARK_INTERFERON_GAMMA_RESPONSEEAG3.5007e-040.4430image
chr21:36417140-36418878:+UCECGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEER1.8964e-030.3649image
ENSG00000159259.7,CHAF1BUCECGSVA_HALLMARK_INTERFERON_ALPHA_RESPONSEEAG1.7792e-030.3670image
ENSG00000159259.7,CHAF1BUCSGSVA_HALLMARK_DNA_REPAIREAG4.8566e-02-0.3761image
chr21:36417140-36418878:+UCSGSVA_HALLMARK_DNA_REPAIREER4.8566e-02-0.3761image


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7. Enriched editing regions and drugs for CHAF1B


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
chr21:36417140-36418878:+BLCAEHT.1864EER1.4508e-030.2724image
ENSG00000159259.7,CHAF1BBLCAEHT.1864EAG1.7433e-030.2670image
chr21:36417140-36418878:+BRCALFM.A13EER4.1083e-04-0.1763image
ENSG00000159259.7,CHAF1BBRCALFM.A13EAG5.9001e-04-0.1713image
chr21:36417140-36418878:+CESCDMOGEER5.8333e-04-0.2348image
ENSG00000159259.7,CHAF1BCESCDMOGEAG5.6460e-04-0.2354image
ENSG00000159259.7,CHAF1BCOADImatinibEAG1.9639e-04-0.5125image
chr21:36417140-36418878:+COADImatinibEER1.9764e-04-0.5123image
ENSG00000159259.7,CHAF1BESCAABT.888EAG3.2410e-020.2070image
chr21:36417140-36418878:+ESCAABT.888EER2.2211e-020.2230image
chr21:36417140-36418878:+GBMAP.24534EER3.1671e-02-0.4222image
ENSG00000159259.7,CHAF1BGBMAP.24534EAG3.1740e-02-0.4220image
chr21:36417140-36418878:+HNSCBicalutamideEER1.2822e-03-0.3343image
ENSG00000159259.7,CHAF1BHNSCBicalutamideEAG1.1453e-03-0.3374image
ENSG00000159259.7,CHAF1BLIHCBexaroteneEAG3.4949e-030.4310image
chr21:36417140-36418878:+LIHCBexaroteneEER3.4949e-030.4310image
chr21:36417140-36418878:+LUADABT.888EER1.1420e-020.3193image
ENSG00000159259.7,CHAF1BLUADABT.888EAG1.1420e-020.3193image
chr21:36417140-36418878:+OVEmbelinEER3.6985e-050.3472image
ENSG00000159259.7,CHAF1BOVEmbelinEAG3.4276e-050.3486image
ENSG00000159259.7,CHAF1BPRADIPA.3EAG7.1591e-030.4528image
chr21:36417140-36418878:+PRADIPA.3EER7.1591e-030.4528image
ENSG00000159259.7,CHAF1BSARCBI.D1870EAG4.8078e-030.2855image
chr21:36417140-36418878:+SARCBI.D1870EER4.9508e-030.2846image
ENSG00000159259.7,CHAF1BSKCMJNK.9LEAG2.6792e-04-0.2802image
chr21:36417140-36418878:+SKCMJNK.9LEER2.6792e-04-0.2802image
chr21:36417140-36418878:+STADBryostatin.1EER1.0876e-03-0.2340image
ENSG00000159259.7,CHAF1BSTADBryostatin.1EAG4.3285e-03-0.2040image
ENSG00000159259.7,CHAF1BTGCTEHT.1864EAG2.2469e-02-0.2185image
chr21:36417140-36418878:+TGCTEHT.1864EER2.2469e-02-0.2185image
chr21:36417140-36418878:+THCAGDC0941EER1.4131e-02-0.3899image
ENSG00000159259.7,CHAF1BTHCAGDC0941EAG1.4131e-02-0.3899image
ENSG00000159259.7,CHAF1BTHYMGDC.0449EAG2.1485e-040.4568image
ENSG00000159259.7,CHAF1BUCECAMG.706EAG2.6029e-020.2660image
chr21:36417140-36418878:+UCECAMG.706EER2.2595e-020.2723image
chr21:36417140-36418878:+UCSKU.55933EER1.0616e-030.5856image
ENSG00000159259.7,CHAF1BUCSKU.55933EAG1.0616e-030.5856image


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