SomamiR DB 2.0 Somatic mutations altering microRNA-ceRNA interactions
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Prediction criteria:	TargetScan sites only     All 6mer or longer seed matches

RefSeq ID:	NM_000081
Gene Symbol:	LYST
Description:	Homo sapiens lysosomal trafficking regulator (LYST), mRNA.
Gene Location:	chr1(-):235824344-236030220

Somatic mutations that impact miRNA target sites

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.235661414C>T			COSN14454339		8066037		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-421	tcctattcaTGTTGAagtg	0	AUCAACAG	m6b	Created	no TS	-0.047000	-0.110000

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.235661685T>G			COSN1100132		HX13T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-495	gtgcaTTTGTTatggaaat	2	AAACAAAC	m6b	Disrupted	0.064000	0.005000	0.140000
hsa-miR-7-1-3p	gtgcATTTGTTatggaaat	3	CAACAAAU	m7b	Disrupted	0.046000	-0.002000	0.160000
hsa-miR-7-2-3p	gtgcATTTGTTatggaaat	3	CAACAAAU	m7b	Disrupted	0.046000	-0.002000	0.010000
hsa-miR-495	gtgcaTTTGTTatggaaat	0	AAACAAAC	m6b	Disrupted	0.064	0.005	0.14
hsa-miR-7-1-3p	gtgcATTTGTTatggaaat	0	CAACAAAU	m7b	Disrupted	0.046	-0.002	0.16
hsa-miR-7-2-3p	gtgcATTTGTTatggaaat	0	CAACAAAU	m7b	Disrupted	0.046	-0.002	0.01

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.235661814A>G			COSN7209096		8013912		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4691-3p	tcccatatgGTGGCTGtct	0	CCAGCCAC	m7b	(m6b->m7b)	no TS	-0.165000	0.320000
hsa-miR-5007-3p	tccCATATGATggctgtct	0	AUCAUAUG	m8a	Disrupted	0.049000	no TS	0.010000

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.235661972A>G			COSN5367916		RK104_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3664-5p	ggaggCAGAGTaattcttt	0	AACUCUGU	m6b	Created	no TS	-0.051000	-3.800000
hsa-miR-4714-5p	ggaggCAGAGTaattcttt	0	AACUCUGA	m6b	Created	no TS	-0.062000	-5.980000
hsa-miR-4778-5p	ggaggCAGAATaattcttt	1	AAUUCUGU	m6b	Disrupted	-0.191000	-0.206000	0.590000
hsa-miR-5001-3p	ggAGGCAGAAtaattcttt	0	UUCUGCCU	m8a	(m8a->m7b)	-0.196000	-0.094000	0.130000
hsa-miR-514a-5p	ggaggCAGAGTAattcttt	0	UACUCUGG	m7a	Created	no TS	-0.055000	No effect
hsa-miR-544a	ggagGCAGAATaattcttt	1	AUUCUGCA	m7a	Disrupted	-0.247000	-0.247000	0.010000
hsa-miR-944	ggaggcagAATAATTcttt	0	AAAUUAUU	m7b	Disrupted	0.134000	no TS	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.235662463T>G			COSN7209097		8053200		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-543	aaagatAATGTTTaggact	0	AAACAUUC	m7a	Created	NA	NA	-0.400000
hsa-miR-548c-3p	aaagataATTTTTaggact	1	CAAAAAUC	m6b	Disrupted	0.362000	0.235000	0.060000

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.235662578G>A			COSN7209098		8058336		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change

No TargetScan sites are altered. To display all potentially impacted target sites, select "All 6mer or longer seed matches" above.

*By default, only target sites identified by TargetScan are displayed. To display all potentially impacted target sites, select "All 6mer or longer seed matches" above.

Germline mutations in target sites of miRNAs in somatic mutation table

Location	SNP ID	Ancestral Allele	Allele	miR ID	Conservation	miRSite	FuncClass	Validation	context+ score change
235661217	rs186176907	A	A	hsa-miR-548c-3p	18	ATTTTTAtgtaaa	Disrupted	N	0.055
			G	hsa-miR-3941 hsa-miR-466 hsa-miR-4672 hsa-miR-4731-3p hsa-miR-4801	15 15 15 17 17	attttTGTGTAAa attttTGTGTAAa attttTGTGTAAa atttTTGTGTAaa atttTTGTGTAaa	Created Created Created Created Created	N N N N N	-0.125 -0.131 -0.127 -0.116 -0.123
235661978	rs12728185	-	G	hsa-miR-4727-5p hsa-miR-5001-3p hsa-miR-660-3p hsa-miR-6738-3p hsa-miR-6778-3p hsa-miR-6791-3p hsa-miR-6829-3p hsa-miR-6836-3p	6 6 4 6 4 4 4 4	acaggaGGCAGAA acaggAGGCAGAA aCAGGAGGcagaa acaggaGGCAGAA acaGGAGGCAgaa acAGGAGGCAgaa acAGGAGGCAgaa acaGGAGGCAgaa	Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown	N N N N N N N N	-0.096 -0.196 -0.159 -0.148 -0.112 -0.247 -0.247 -0.194
			C	hsa-miR-4520a-5p hsa-miR-4520b-5p	8 8	acaggACGCAGAa acaggACGCAGAa	Unknown Unknown	N N	-0.17 -0.17

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