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	1. Gene summary of enriched editing regions
	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.
	3. Enriched editing regions and immune related genes
	4. Enriched editing regions and immune related splicing
	5. Enriched editing regions and immune infiltration
	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.
	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: STAG3L2 (ImmuneEditome ID:442582)

1. Gene summary of enriched editing regions for STAG3L2

Gene summary

Gene information	Gene symbol	STAG3L2
	Gene ID	442582
	GeneSynonyms	STAG3L1\|STAG3L2P\|STAG3L3
	GeneCytomap	7q11.23
	GeneType	pseudo
	GeneDescription	STAG3-like protein 2\|stromal antigen 3-like 2 (pseudogene)
	GeneModificationdate	20230422
	UniprotID	.
	PubMed ID

UCSC image.

Locations of each EERs.

EER	ENST	ENSG	GeneName	Region	Repeat	dsRNA structure
chr7:74882500-74883320:-	ENST00000426587.4	ENSG00000277072.3	STAG3L2	ncRNA_exonic	FLAM_C,MIR,AluY	chr7:74882500-74883320:-.alignment
chr7:74882500-74883320:-	ENST00000622110.3	ENSG00000277072.3	STAG3L2	ncRNA_exonic	FLAM_C,MIR,AluY	chr7:74882500-74883320:-.alignment

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2. Tumor-specific enriched editing regions for STAG3L2

Comparison of enriched editing regions between tumor and normal.

* P<0.05 and Informative number >=20.

* EER: enriched editing region, EAG: EER-associated genes.

ID_events	cancer	Type	P	Boxplot
chr7:74882500-74883320:-	BRCA	EER	2.1540e-02
ENSG00000277072.3,STAG3L2	BRCA	EAG	2.1540e-02

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Correlation 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_events	cancer	Type	StageType	AnovaP	P	R	Boxplot
ENSG00000277072.3,STAG3L2	BLCA	Path	EAG	3.7462e-03	8.1959e-04	-0.2836
ENSG00000277072.3,STAG3L2	PAAD	Path	EAG	1.9170e-02	1.5287e-02	0.2756
chr7:74882500-74883320:-	PAAD	Path	EER	1.9170e-02	1.5287e-02	0.2756

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Associations of enriched editing regions with cancer survival.

* Pkm<0.05 and Pcox<0.05.

* EER: enriched editing region, EAG: EER-associated genes.

ID_events

cancer

TypeID

Pkm

Pcox_continuous

HR_continuous

KMPlot

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3. Enriched editing regions and immune related genes for STAG3L2

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_events

cancer

Type

Gene

beta

FDR

PearsonP

PearsonR

CorrelationPlot

RBP

RBPtargets

ImmuneGene

ImmuneFraction

HallMark

chr7:74882500-74883320:-

GBM

EER

ENSG00000217128,FNIP1

-0.4514

8.6938e-05

8.3300e-08

-0.4491

Neutrophils

GSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY

chr7:74882500-74883320:-

GBM

EER

ENSG00000198677,TTC37

-0.4020

7.9709e-04

1.6335e-06

-0.4061

T_cells_CD8

GSVA_HALLMARK_MITOTIC_SPINDLE

chr7:74882500-74883320:-

GBM

EER

ENSG00000178896,EXOSC4

0.3807

1.8128e-03

9.4264e-07

0.4145

Neutrophils

GSVA_HALLMARK_DNA_REPAIR

chr7:74882500-74883320:-

GBM

EER

ENSG00000217128,FNIP1

-0.4514

8.6938e-05

8.3300e-08

-0.4491

Neutrophils

GSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY

chr7:74882500-74883320:-

GBM

EER

ENSG00000198677,TTC37

-0.4020

7.9709e-04

1.6335e-06

-0.4061

T_cells_CD8

GSVA_HALLMARK_MITOTIC_SPINDLE

chr7:74882500-74883320:-

GBM

EER

ENSG00000178896,EXOSC4

0.3807

1.8128e-03

9.4264e-07

0.4145

Neutrophils

GSVA_HALLMARK_DNA_REPAIR

More results

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4. Enriched editing regions and immune related splicing for STAG3L2

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_events

cancer

Type

SplicingType

SplicingGene

SplicingChr

SplicingPosition

beta

FDR

PearsonP

PearsonR

CorrelationPlot

RBP

RBPtargets

ImmuneGene

ImmuneFraction

HallMark

chr7:74882500-74883320:-

GBM

EER

MEX

ENSG00000129657.10

chr17

77215994:77215997:77216023:77216036:77216049:77216387:77216413:77216802

0.2744

4.6486e-02

8.7106e-06

0.4082

T_cells_gamma_delta

GSVA_HALLMARK_ESTROGEN_RESPONSE_EARLY

More results

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5. Enriched editing regions and immune infiltration for STAG3L2

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_events	cancer	TypeID	ImmuneCell	P	R	CorrelationPlot
ENSG00000277072.3,STAG3L2	BLCA	EAG	T_cells_CD4_naive	3.1819e-03	0.2494
chr7:74882500-74883320:-	CHOL	EER	Macrophages_M0	4.6050e-02	-0.4398
ENSG00000277072.3,STAG3L2	CHOL	EAG	Macrophages_M0	4.6050e-02	-0.4398
chr7:74882500-74883320:-	COAD	EER	Macrophages_M0	4.1223e-02	-0.1959
ENSG00000277072.3,STAG3L2	COAD	EAG	Macrophages_M0	4.1223e-02	-0.1959
ENSG00000277072.3,STAG3L2	DLBC	EAG	Neutrophils	2.8636e-02	0.4213
chr7:74882500-74883320:-	ESCA	EER	Monocytes	8.4799e-03	0.2101
ENSG00000277072.3,STAG3L2	ESCA	EAG	Monocytes	8.4799e-03	0.2101
chr7:74882500-74883320:-	GBM	EER	NK_cells_resting	4.9222e-02	-0.1729
ENSG00000277072.3,STAG3L2	GBM	EAG	NK_cells_resting	4.9222e-02	-0.1729
ENSG00000277072.3,STAG3L2	HNSC	EAG	T_cells_CD4_naive	4.9075e-02	-0.1757
chr7:74882500-74883320:-	KIRC	EER	Dendritic_cells_resting	2.7055e-02	-0.1481
ENSG00000277072.3,STAG3L2	KIRC	EAG	Dendritic_cells_resting	2.7055e-02	-0.1481
chr7:74882500-74883320:-	LUSC	EER	Dendritic_cells_activated	1.3406e-02	-0.1458
ENSG00000277072.3,STAG3L2	LUSC	EAG	Dendritic_cells_activated	1.3406e-02	-0.1458
ENSG00000277072.3,STAG3L2	MESO	EAG	T_cells_regulatory_(Tregs)	1.9318e-03	0.6115
chr7:74882500-74883320:-	OV	EER	Macrophages_M2	3.0448e-05	0.2541
ENSG00000277072.3,STAG3L2	OV	EAG	Macrophages_M2	3.0448e-05	0.2541
chr7:74882500-74883320:-	PAAD	EER	Plasma_cells	3.2792e-04	0.3940
ENSG00000277072.3,STAG3L2	PAAD	EAG	Plasma_cells	3.2792e-04	0.3940
chr7:74882500-74883320:-	READ	EER	T_cells_gamma_delta	1.3802e-05	0.6564
ENSG00000277072.3,STAG3L2	READ	EAG	T_cells_gamma_delta	1.3802e-05	0.6564
ENSG00000277072.3,STAG3L2	SARC	EAG	Plasma_cells	5.0309e-04	0.4499
chr7:74882500-74883320:-	SKCM	EER	T_cells_CD4_memory_activated	1.3448e-02	0.1421
ENSG00000277072.3,STAG3L2	SKCM	EAG	T_cells_CD4_memory_activated	1.3448e-02	0.1421
chr7:74882500-74883320:-	THCA	EER	Macrophages_M1	1.6258e-02	-0.1252
ENSG00000277072.3,STAG3L2	THCA	EAG	Macrophages_M1	1.6258e-02	-0.1252
ENSG00000277072.3,STAG3L2	THYM	EAG	NK_cells_activated	3.5023e-02	0.2506
ENSG00000277072.3,STAG3L2	UCEC	EAG	T_cells_CD4_naive	4.6353e-02	0.2650
ENSG00000277072.3,STAG3L2	UCS	EAG	T_cells_gamma_delta	3.5938e-02	0.4131

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6. Enriched editing regions and immune gene sets for STAG3L2

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_events

cancer

Type

E2M_P

Boxplot

CorP

CorR

CorrelationPlot

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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_events

cancer

Type

Buffa_P

Buffa_R

Ragnum_P

Ragnum_R

Winter_P

Winter_R

HALLMARK_P

HALLMARK_R

CorrelationPlot

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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_events	cancer	HallmarkType	Type	P	R	CorrelationPlot
ENSG00000277072.3,STAG3L2	BLCA	GSVA_HALLMARK_UNFOLDED_PROTEIN_RESPONSE	EAG	3.3166e-02	0.1815
chr7:74882500-74883320:-	BRCA	GSVA_HALLMARK_MTORC1_SIGNALING	EER	3.0183e-02	0.0877
ENSG00000277072.3,STAG3L2	BRCA	GSVA_HALLMARK_MTORC1_SIGNALING	EAG	3.0183e-02	0.0877
chr7:74882500-74883320:-	CESC	GSVA_HALLMARK_PEROXISOME	EER	3.5804e-02	-0.2308
ENSG00000277072.3,STAG3L2	CESC	GSVA_HALLMARK_PEROXISOME	EAG	3.5804e-02	-0.2308
chr7:74882500-74883320:-	CHOL	GSVA_HALLMARK_PANCREAS_BETA_CELLS	EER	9.4198e-03	0.5524
ENSG00000277072.3,STAG3L2	CHOL	GSVA_HALLMARK_PANCREAS_BETA_CELLS	EAG	9.4198e-03	0.5524
chr7:74882500-74883320:-	COAD	GSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATION	EER	2.0005e-03	0.2928
ENSG00000277072.3,STAG3L2	COAD	GSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATION	EAG	2.0005e-03	0.2928
ENSG00000277072.3,STAG3L2	GBM	GSVA_HALLMARK_DNA_REPAIR	EAG	1.2288e-02	0.2190
chr7:74882500-74883320:-	GBM	GSVA_HALLMARK_DNA_REPAIR	EER	1.2288e-02	0.2190
ENSG00000277072.3,STAG3L2	KICH	GSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	EAG	1.9057e-02	0.3124
chr7:74882500-74883320:-	KICH	GSVA_HALLMARK_REACTIVE_OXYGEN_SPECIES_PATHWAY	EER	1.9057e-02	0.3124
ENSG00000277072.3,STAG3L2	KIRP	GSVA_HALLMARK_HEME_METABOLISM	EAG	3.3854e-02	0.1486
ENSG00000277072.3,STAG3L2	LAML	GSVA_HALLMARK_PI3K_AKT_MTOR_SIGNALING	EAG	9.4668e-03	0.2194
chr7:74882500-74883320:-	LUAD	GSVA_HALLMARK_IL2_STAT5_SIGNALING	EER	7.1881e-03	-0.1808
ENSG00000277072.3,STAG3L2	LUAD	GSVA_HALLMARK_IL2_STAT5_SIGNALING	EAG	7.1881e-03	-0.1808
chr7:74882500-74883320:-	PAAD	GSVA_HALLMARK_ANDROGEN_RESPONSE	EER	4.8827e-03	-0.3136
ENSG00000277072.3,STAG3L2	PAAD	GSVA_HALLMARK_ANDROGEN_RESPONSE	EAG	4.8827e-03	-0.3136
ENSG00000277072.3,STAG3L2	PCPG	GSVA_HALLMARK_PEROXISOME	EAG	1.3593e-03	0.3240
chr7:74882500-74883320:-	PCPG	GSVA_HALLMARK_PEROXISOME	EER	1.3593e-03	0.3240
chr7:74882500-74883320:-	PRAD	GSVA_HALLMARK_PANCREAS_BETA_CELLS	EER	1.1176e-02	-0.1599
ENSG00000277072.3,STAG3L2	PRAD	GSVA_HALLMARK_PANCREAS_BETA_CELLS	EAG	1.1176e-02	-0.1599
ENSG00000277072.3,STAG3L2	READ	GSVA_HALLMARK_BILE_ACID_METABOLISM	EAG	2.2925e-02	0.3782
chr7:74882500-74883320:-	READ	GSVA_HALLMARK_BILE_ACID_METABOLISM	EER	2.2925e-02	0.3782
ENSG00000277072.3,STAG3L2	SKCM	GSVA_HALLMARK_DNA_REPAIR	EAG	1.8677e-02	-0.1353
chr7:74882500-74883320:-	SKCM	GSVA_HALLMARK_DNA_REPAIR	EER	1.8677e-02	-0.1353
chr7:74882500-74883320:-	STAD	GSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALING	EER	1.0229e-06	0.2688
ENSG00000277072.3,STAG3L2	STAD	GSVA_HALLMARK_WNT_BETA_CATENIN_SIGNALING	EAG	1.0277e-06	0.2687
ENSG00000277072.3,STAG3L2	TGCT	GSVA_HALLMARK_OXIDATIVE_PHOSPHORYLATION	EAG	1.1407e-02	-0.3144
ENSG00000277072.3,STAG3L2	UVM	GSVA_HALLMARK_MITOTIC_SPINDLE	EAG	1.7345e-02	0.3790

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7. Enriched editing regions and drugs for STAG3L2

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_events	cancer	Drug	Type	P	R	CorrelationPlot
ENSG00000277072.3,STAG3L2	BLCA	ATRA	EAG	2.1984e-02	0.1949
chr7:74882500-74883320:-	CESC	Dasatinib	EER	1.3340e-04	-0.4072
ENSG00000277072.3,STAG3L2	CESC	Dasatinib	EAG	1.3340e-04	-0.4072
ENSG00000277072.3,STAG3L2	CHOL	BMS.509744	EAG	3.9803e-02	-0.4517
chr7:74882500-74883320:-	CHOL	BMS.509744	EER	3.9803e-02	-0.4517
ENSG00000277072.3,STAG3L2	COAD	AP.24534	EAG	5.8409e-03	0.2624
chr7:74882500-74883320:-	COAD	AP.24534	EER	5.8409e-03	0.2624
ENSG00000277072.3,STAG3L2	DLBC	BI.2536	EAG	9.4033e-03	0.4904
chr7:74882500-74883320:-	ESCA	Bexarotene	EER	1.5727e-02	-0.1931
ENSG00000277072.3,STAG3L2	ESCA	Bexarotene	EAG	1.5727e-02	-0.1931
chr7:74882500-74883320:-	GBM	AS601245	EER	1.4776e-03	0.2760
ENSG00000277072.3,STAG3L2	GBM	AS601245	EAG	1.4776e-03	0.2760
ENSG00000277072.3,STAG3L2	HNSC	EHT.1864	EAG	4.2883e-02	-0.1807
ENSG00000277072.3,STAG3L2	KICH	ABT.263	EAG	1.1300e-02	0.3362
chr7:74882500-74883320:-	KICH	ABT.263	EER	1.1300e-02	0.3362
ENSG00000277072.3,STAG3L2	KIRC	JW.7.52.1	EAG	2.4007e-02	0.1511
chr7:74882500-74883320:-	KIRC	JW.7.52.1	EER	2.4007e-02	0.1511
ENSG00000277072.3,STAG3L2	KIRP	FH535	EAG	2.4536e-03	-0.2110
ENSG00000277072.3,STAG3L2	LAML	CGP.60474	EAG	4.9858e-03	-0.2369
ENSG00000277072.3,STAG3L2	LGG	BMS.708163	EAG	1.9147e-02	0.1502
chr7:74882500-74883320:-	LGG	BMS.708163	EER	1.9147e-02	0.1502
chr7:74882500-74883320:-	LIHC	ABT.263	EER	2.4696e-02	0.2665
ENSG00000277072.3,STAG3L2	LIHC	ABT.263	EAG	2.4696e-02	0.2665
chr7:74882500-74883320:-	LUAD	JNJ.26854165	EER	7.1882e-04	0.2264
ENSG00000277072.3,STAG3L2	LUAD	JNJ.26854165	EAG	7.1882e-04	0.2264
chr7:74882500-74883320:-	LUSC	JNJ.26854165	EER	2.0968e-03	-0.1809
ENSG00000277072.3,STAG3L2	LUSC	JNJ.26854165	EAG	2.0968e-03	-0.1809
ENSG00000277072.3,STAG3L2	MESO	CCT007093	EAG	2.9267e-02	-0.4547
ENSG00000277072.3,STAG3L2	OV	BX.795	EAG	3.5332e-02	-0.1298
chr7:74882500-74883320:-	OV	BX.795	EER	3.5332e-02	-0.1298
chr7:74882500-74883320:-	PAAD	BIRB.0796	EER	2.6627e-04	-0.3994
ENSG00000277072.3,STAG3L2	PAAD	BIRB.0796	EAG	2.6627e-04	-0.3994
chr7:74882500-74883320:-	PCPG	KIN001.135	EER	1.7759e-02	-0.2428
ENSG00000277072.3,STAG3L2	PCPG	KIN001.135	EAG	1.7759e-02	-0.2428
chr7:74882500-74883320:-	PRAD	FH535	EER	8.6432e-03	-0.1654
ENSG00000277072.3,STAG3L2	PRAD	FH535	EAG	8.6432e-03	-0.1654
ENSG00000277072.3,STAG3L2	READ	GSK.650394	EAG	6.8443e-03	0.4428
chr7:74882500-74883320:-	READ	GSK.650394	EER	6.8443e-03	0.4428
ENSG00000277072.3,STAG3L2	SARC	FTI.277	EAG	3.0953e-05	0.5263
chr7:74882500-74883320:-	SKCM	BIBW2992	EER	1.1529e-03	-0.1862
ENSG00000277072.3,STAG3L2	SKCM	BIBW2992	EAG	1.1529e-03	-0.1862
chr7:74882500-74883320:-	STAD	CI.1040	EER	6.4635e-03	0.1517
ENSG00000277072.3,STAG3L2	STAD	CI.1040	EAG	6.4772e-03	0.1517
ENSG00000277072.3,STAG3L2	TGCT	A.443654	EAG	3.7788e-02	0.2603
ENSG00000277072.3,STAG3L2	THCA	KIN001.135	EAG	1.2659e-02	0.1299
chr7:74882500-74883320:-	THCA	KIN001.135	EER	1.2659e-02	0.1299
ENSG00000277072.3,STAG3L2	UCEC	Bosutinib	EAG	3.1153e-02	-0.2858
ENSG00000277072.3,STAG3L2	UCS	BIBW2992	EAG	2.5349e-02	-0.4377
ENSG00000277072.3,STAG3L2	UVM	ATRA	EAG	1.8187e-02	-0.3764

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EAGs targeted by drugs from DrugBank database.

* EAG: EER-associated genes.

EER

ENST

UniprotID

DrugBankID

Drug

DrugType