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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: PSPC1 (ImmuneEditome ID:55269)

1. Gene summary of enriched editing regions for PSPC1

check button Gene summary
Gene informationGene symbol

PSPC1

Gene ID

55269

GeneSynonymsPSP1
GeneCytomap

13q12.11

GeneTypeprotein-coding
GeneDescriptionparaspeckle component 1|paraspeckle protein 1
GeneModificationdate20230518
UniprotIDQ8WXF1;A0A024RDP4;A0A0U1RQF9;X6RDA4
PubMed ID

check buttonUCSC image.
all structure

check buttonLocations of each EERs.
EERENSTENSGGeneNameRegionRepeatdsRNA structure
chr13:19678760-19680240:-ENST00000471658.4ENSG00000121390.16PSPC1intronic(AATTTTT)n,MER2,AluJb,AluSxchr13:19678760-19680240:-.alignment
chr13:19678760-19680240:-ENST00000492741.4ENSG00000121390.16PSPC1intronic(AATTTTT)n,MER2,AluJb,AluSxchr13:19678760-19680240:-.alignment
chr13:19710909-19711575:-ENST00000338910.7ENSG00000121390.16PSPC1intronicAluY,AluJo,AluSq2chr13:19710909-19711575:-.alignment
chr13:19710909-19711575:-ENST00000471658.4ENSG00000121390.16PSPC1intronicAluY,AluJo,AluSq2chr13:19710909-19711575:-.alignment
chr13:19710909-19711575:-ENST00000492741.4ENSG00000121390.16PSPC1intronicAluY,AluJo,AluSq2chr13:19710909-19711575:-.alignment
chr13:19710909-19711575:-ENST00000619300.3ENSG00000121390.16PSPC1intronicAluY,AluJo,AluSq2chr13:19710909-19711575:-.alignment
chr13:19744613-19745829:-ENST00000338910.7ENSG00000121390.16PSPC1intronicAluSc8,AluSg4,AluSzchr13:19744613-19745829:-.alignment
chr13:19744613-19745829:-ENST00000471658.4ENSG00000121390.16PSPC1intronicAluSc8,AluSg4,AluSzchr13:19744613-19745829:-.alignment
chr13:19744613-19745829:-ENST00000492741.4ENSG00000121390.16PSPC1intronicAluSc8,AluSg4,AluSzchr13:19744613-19745829:-.alignment
chr13:19744613-19745829:-ENST00000619300.3ENSG00000121390.16PSPC1intronicAluSc8,AluSg4,AluSzchr13:19744613-19745829:-.alignment
chr13:19764599-19765649:-ENST00000338910.7ENSG00000121390.16PSPC1intronic(TAA)n,FLAM_C,Looper,AluJr,AluJb,AluSzchr13:19764599-19765649:-.alignment
chr13:19764599-19765649:-ENST00000427943.1ENSG00000121390.16PSPC1intronic(TAA)n,FLAM_C,Looper,AluJr,AluJb,AluSzchr13:19764599-19765649:-.alignment
chr13:19764599-19765649:-ENST00000471658.4ENSG00000121390.16PSPC1intronic(TAA)n,FLAM_C,Looper,AluJr,AluJb,AluSzchr13:19764599-19765649:-.alignment
chr13:19764599-19765649:-ENST00000492741.4ENSG00000121390.16PSPC1intronic(TAA)n,FLAM_C,Looper,AluJr,AluJb,AluSzchr13:19764599-19765649:-.alignment
chr13:19764599-19765649:-ENST00000619300.3ENSG00000121390.16PSPC1intronic(TAA)n,FLAM_C,Looper,AluJr,AluJb,AluSzchr13:19764599-19765649:-.alignment
chr13:19770590-19771899:-ENST00000338910.7ENSG00000121390.16PSPC1intronic(TTA)n,AluSz,AluSx,AluSz6,FRAMchr13:19770590-19771899:-.alignment
chr13:19770590-19771899:-ENST00000427943.1ENSG00000121390.16PSPC1intronic(TTA)n,AluSz,AluSx,AluSz6,FRAMchr13:19770590-19771899:-.alignment
chr13:19770590-19771899:-ENST00000471658.4ENSG00000121390.16PSPC1intronic(TTA)n,AluSz,AluSx,AluSz6,FRAMchr13:19770590-19771899:-.alignment
chr13:19770590-19771899:-ENST00000492741.4ENSG00000121390.16PSPC1intronic(TTA)n,AluSz,AluSx,AluSz6,FRAMchr13:19770590-19771899:-.alignment
chr13:19770590-19771899:-ENST00000619300.3ENSG00000121390.16PSPC1intronic(TTA)n,AluSz,AluSx,AluSz6,FRAMchr13:19770590-19771899:-.alignment


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2. Tumor-specific enriched editing regions for PSPC1


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 PSPC1


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 PSPC1


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 PSPC1


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
ENSG00000121390.16,PSPC1BLCAEAGEosinophils1.9594e-02-0.4464image
chr13:19678760-19680240:-BRCAEEREosinophils5.5363e-03-0.2560image
ENSG00000121390.16,PSPC1BRCAEAGT_cells_CD4_memory_resting6.5984e-03-0.2488image
chr13:19678760-19680240:-ESCAEERMacrophages_M24.0839e-020.3170image
ENSG00000121390.16,PSPC1ESCAEAGDendritic_cells_resting2.5952e-030.2966image
ENSG00000121390.16,PSPC1KIRCEAGT_cells_CD84.5310e-020.3456image
ENSG00000121390.16,PSPC1LGGEAGT_cells_CD4_naive3.8722e-03-0.4891image
ENSG00000121390.16,PSPC1OVEAGT_cells_CD81.4546e-02-0.2930image
chr13:19678760-19680240:-STADEERT_cells_regulatory_(Tregs)2.0724e-020.3296image
chr13:19764599-19765649:-STADEERT_cells_CD4_memory_activated7.2668e-030.4800image
ENSG00000121390.16,PSPC1STADEAGT_cells_CD4_naive2.2472e-020.1613image


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6. Enriched editing regions and immune gene sets for PSPC1


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
ENSG00000121390.16,PSPC1BLCAGSVA_HALLMARK_UV_RESPONSE_UPEAG5.4885e-030.5195image
chr13:19678760-19680240:-BRCAGSVA_HALLMARK_ESTROGEN_RESPONSE_LATEEER1.1516e-040.3504image
ENSG00000121390.16,PSPC1BRCAGSVA_HALLMARK_ESTROGEN_RESPONSE_LATEEAG1.7595e-070.4586image
chr13:19678760-19680240:-ESCAGSVA_HALLMARK_PI3K_AKT_MTOR_SIGNALINGEER1.3073e-02-0.3799image
ENSG00000121390.16,PSPC1ESCAGSVA_HALLMARK_UV_RESPONSE_DNEAG4.6224e-030.2796image
ENSG00000121390.16,PSPC1KIRCGSVA_HALLMARK_KRAS_SIGNALING_DNEAG4.1409e-030.4792image
chr13:19678760-19680240:-LAMLGSVA_HALLMARK_MITOTIC_SPINDLEEER4.4999e-02-0.2666image
ENSG00000121390.16,PSPC1LGGGSVA_HALLMARK_HYPOXIAEAG2.4242e-020.3915image
ENSG00000121390.16,PSPC1LUADGSVA_HALLMARK_UV_RESPONSE_DNEAG2.9404e-02-0.3405image
ENSG00000121390.16,PSPC1OVGSVA_HALLMARK_NOTCH_SIGNALINGEAG1.3709e-020.2955image
chr13:19678760-19680240:-PRADGSVA_HALLMARK_UV_RESPONSE_DNEER3.2715e-020.4282image
ENSG00000121390.16,PSPC1PRADGSVA_HALLMARK_HEME_METABOLISMEAG5.5932e-030.5185image
chr13:19678760-19680240:-STADGSVA_HALLMARK_KRAS_SIGNALING_DNEER2.0862e-020.3293image
chr13:19764599-19765649:-STADGSVA_HALLMARK_MTORC1_SIGNALINGEER1.2636e-020.4498image
ENSG00000121390.16,PSPC1STADGSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALINGEAG9.5690e-050.2723image
ENSG00000121390.16,PSPC1THCAGSVA_HALLMARK_APOPTOSISEAG2.5101e-020.3374image


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7. Enriched editing regions and drugs for PSPC1


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
ENSG00000121390.16,PSPC1BLCAAZD6482EAG2.4158e-030.5594image
chr13:19678760-19680240:-BRCAJW.7.52.1EER5.3050e-03-0.2573image
ENSG00000121390.16,PSPC1BRCAABT.263EAG8.2097e-040.3052image
chr13:19678760-19680240:-ESCAGDC.0449EER9.3508e-03-0.3964image
ENSG00000121390.16,PSPC1ESCACEP.701EAG7.9333e-030.2628image
ENSG00000121390.16,PSPC1KIRCAG.014699EAG7.4964e-040.5501image
chr13:19678760-19680240:-LAMLBI.D1870EER5.7235e-030.3615image
ENSG00000121390.16,PSPC1LGGGSK269962AEAG2.0195e-02-0.4026image
ENSG00000121390.16,PSPC1LUADAKT.inhibitor.VIIIEAG2.4321e-030.4608image
ENSG00000121390.16,PSPC1OVLapatinibEAG3.5521e-04-0.4177image
ENSG00000121390.16,PSPC1PRADEpothilone.BEAG2.6466e-02-0.4266image
chr13:19744613-19745829:-STADA.770041EER2.1208e-020.3633image
chr13:19764599-19765649:-STADDocetaxelEER1.0424e-02-0.4606image
ENSG00000121390.16,PSPC1STADA.770041EAG2.7512e-020.1563image
ENSG00000121390.16,PSPC1THCABIBW2992EAG9.4188e-04-0.4813image


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