Epigenetic silencing of TGFBI confers resistance to trastuzumab in human breast cancer

Palomeras, Sònia; Diaz-Lagares, Ángel; Viñas, Gemma; Setien, Fernando; Ferreira, Humberto J.; Oliveras, Glòria; Crujeiras, Ana B.; Hernández, Alejandro; Lum, David H.; Welm, Alana L.; Esteller, Manel; Puig, Teresa

doi:10.1186/s13058-019-1160-x

Breast Cancer Research

Table 1 Thirty-one differentially methylated and differentially expressed genes between the SK and SKTR models

From: Epigenetic silencing of TGFBI confers resistance to trastuzumab in human breast cancer

TargetID	Chr	Position	Gene name	Gene region	SK	SKTR	SKTR vs SK
cg08757148	1	24513722	IL28RA;IL28RA;IL28RA	1stExon;1stExon;1stExon	0.11	0.67	0.56
cg03470088	1	24513939	IL28RA;IL28RA;IL28RA	TSS200;TSS200;TSS200	0.05	0.79	0.75
cg26558485	1	47489282	CYP4X1;CYP4X1	1stExon;5′UTR	0.14	0.69	0.54
cg06816106	2	29033352	SPDYA;SPDYA	TSS1500;TSS1500	0.18	0.64	0.46
cg14798656	2	97760745	FAHD2B	TSS200	0.17	0.62	0.45
cg25999267	3	39424992	SLC25A38;SLC25A38	1stExon;5′UTR	0.19	0.75	0.56
cg17264618	3	40429014	ENTPD3	5′UTR	0.14	0.61	0.46
cg09363539	3	124931746	SLC12A8	TSS200	0.01	0.82	0.81
cg15860013	3	138327718	FAIM;FAIM;FAIM;FAIM;FAIM;FAIM;FAIM	5′UTR;TSS200;1stExon;5′UTR;1stExon;5′UTR;1stExon	0.18	0.68	0.50
cg20841906	3	160822911	B3GALNT1;B3GALNT1;B3GALNT1;B3GALNT1;B3GALNT1	5′UTR;5′UTR;5′UTR;5′UTR;TSS1500	0.06	0.70	0.64
cg20986370	4	57976171	IGFBP7	1stExon	0.19	0.69	0.49
cg19031658	4	74964856	CXCL2;CXCL2	1stExon;5′UTR	0.05	0.89	0.85
cg22847221	4	74964920	CXCL2;CXCL2	1stExon;5′UTR	0.13	0.61	0.48
cg00630212	4	74965135	CXCL2	TSS200	0.16	0.65	0.49
cg18804985	4	74965226	CXCL2	TSS1500	0.18	0.96	0.78
cg01429321	5	121413797	LOX;LOX	5′UTR;1stExon	0.10	0.62	0.52
cg21034676	5	135364552	TGFBI	TSS200	0.11	0.61	0.51
cg14120129	5	135364575	TGFBI	TSS200	0.06	0.61	0.55
cg09873933	5	135364580	TGFBI	TSS200	0.09	0.63	0.54
cg07151644	6	31649089	LY6G5C	TSS1500	0.16	0.60	0.44
cg07753583	7	150020206	LRRC61;ACTR3C;LRRC61	TSS200;5′UTR;TSS200	0.17	0.86	0.69
cg10348193	7	150020240	LRRC61;ACTR3C;LRRC61	TSS200;5′UTR;TSS200	0.15	0.97	0.82
cg11026333	7	150020269	LRRC61;ACTR3C;LRRC61	TSS200;5′UTR;TSS200	0.06	0.98	0.92
cg01270001	7	150020401	LRRC61;ACTR3C;LRRC61;LRRC61;LRRC61	1stExon;5′UTR;5′UTR;5′UTR;1stExon	0.13	0.94	0.81
cg22893248	7	150020751	ACTR3C;ACTR3C;LRRC61;LRRC61	1stExon;5′UTR;5′UTR;5′UTR	0.19	0.73	0.54
cg09327770	12	46663270	SLC38A1;SLC38A1	TSS200;TSS200	0.02	0.83	0.81
cg20463033	12	46663274	SLC38A1;SLC38A1	TSS200;TSS200	0.01	0.77	0.76
cg24795297	12	46663281	SLC38A1;SLC38A1	TSS200;TSS200	0.07	0.77	0.71
cg03859162	13	99404887	SLC15A1;SLC15A1	1stExon;5′UTR	0.12	0.66	0.55
cg03485262	14	92980031	RIN3	TSS200	0.04	0.72	0.68
cg08114373	14	92980204	RIN3;RIN3	5′UTR;1stExon	0.17	0.61	0.44
cg18614734	15	96876248	NR2F2;NR2F2;NR2F2;MIR1469;NR2F2	Body;Body;5′UTR;TSS1500;TSS1500	0.18	0.65	0.47
cg01549404	16	55358636	IRX6;IRX6	5′UTR;1stExon	0.11	0.61	0.50
cg01568244	16	67218584	KIAA0895L;EXOC3L	TSS1500;Body	0.14	0.82	0.69
cg01666600	17	21279561	KCNJ12	TSS200	0.05	0.70	0.65
cg03928539	17	21279613	KCNJ12	TSS200	0.08	0.62	0.54
cg01637175	17	21281507	KCNJ12	5′UTR	0.08	0.78	0.70
cg11804833	17	40575289	PTRF;PTRF	1stExon;5′UTR	0.08	0.62	0.54
cg06093379	17	44896080	WNT3;WNT3	5′UTR;1stExon	0.01	0.83	0.82
cg24441185	18	9708096	RAB31	TSS200	0.06	0.92	0.86
cg17289202	18	56530789	ZNF532	5′UTR	0.13	0.80	0.67
cg22932336	19	4535070	PLIN5	5′UTR	0.10	0.88	0.78
cg04532834	19	4535188	PLIN5;PLIN5	1stExon;5′UTR	0.17	0.64	0.46
cg02505409	19	8429160	ANGPTL4;ANGPTL4;ANGPTL4;ANGPTL4	5′UTR;1stExon;5′UTR;1stExon	0.16	0.79	0.63
cg06837791	19	8429491	ANGPTL4;ANGPTL4	1stExon;1stExon	0.17	0.61	0.44
cg12831261	21	45078437	RRP1B;HSF2BP	TSS1500;5′UTR	0.01	0.93	0.92

*Italics denotes the three final genes selected for further analysis

Back to article page

ISSN: 1465-542X

Contact us

Submission enquiries: journalsubmissions@springernature.com