Quantification and clinical relevance of gene amplification at chromosome 17q12-q21 in human epidermal growth factor receptor 2-amplified breast cancers

Lamy, Pierre-Jean; Fina, Frédéric; Bascoul-Mollevi, Caroline; Laberenne, Anne-Claire; Martin, Pierre-Marie; Ouafik, L'Houcine; Jacot, William

doi:10.1186/bcr2824

Table 2 Primer sequences and qPCR conditions used to quantify MED1, STARD3, HER2, GRB7, THRA, RARA, TOP2A, IGFBP4, CCR7, KRT20, KRT19, GAS, ACBT, GAPDH and SSTR2^a

From: Quantification and clinical relevance of gene amplification at chromosome 17q12-q21 in human epidermal growth factor receptor 2-amplified breast cancers

GenBank accession number	Gene name/primer	Sequence 5'-3'	Size nt	GC, %	Amplicon, bp	Annealing temperature
NP_004765	MED1 sense	ATT CTC CTG GGC TTC TCC AA	20	50%	97	54°C
	MED1 antisense	CCA CAC ACC AGG GAG TCA TT	20	55%
NP_006795	STARD3 sense	CAG GCT GCT AGG GTG TAA CTG	21	57%	114	64°C
	STARD3 antisense	GAC AGA GCA CCG GAG AAC AG	20	60%
NM_004448	HER2 sense	GCT CCC CAT ATG TCT CCC G	19	63%	101	58°C
	HER2 antisense	CCG GAC ATG GTC TAA GAG GC	20	60%
NP_005301	GRB7 sense	CTC TGG CTC AGA ACT TCC TGA AT	23	48%	142	60°C
	GRB7 antisense	GTG CCC TTG GTG GAG TAA TAG AG	23	52%
NP_003241	THRA sense	GTG GAC AAG ATC GAG AAG AGT CAG	24	50%	119	60°C
	THRA antisense	AGG TCA GTC ACC TTC ATC AGC AG	23	52%
NP_000955	RARA sense	GGA GTG CTC AGA GTG GGT TC	20	60%	110	64°C
	RARA antisense	AGA AGG TCA TGG TGT CCT GCT C	22	55%
NP_001058	TOP2A sense	GAT TCT GGA CCA ACC TTC AAC TA	23	43%	121	58°C
	TOP2A antisense	ATG TAC CAT CCT ACT ATC AAC TCA CTT T	28	36%
NP_001543	IGFBP4 sense	CTC TTC CGG TGC TGA CCT CT	20	60%	146	60°C
	IGFBP4 antisense	GGT GCT CCG GTC TCG AAT	18	61%
NP_001829	CCR7 sense	AGG CTA AAT CCC AGC CAG AG	20	55%	127	58°C
	CCR7 antisense	CTG TGG TGT TGT CTC CGA TG	20	55%
XP_352920	KRT20 sense	ATG GCT TCA GAA GGA CCA GTT	21	48%	95	56°C
	KRT20 antisense	TGG AGA TCA GCT TCC ACT GTT A	22	45%
NP_002267	KRT19 sense	TGA CAT GCG AAG CCA ATA TG	20	45%	124	56°C
	KRT19 antisense	AAA GCC CTC CCC TTC CTA AC	20	55%
X00183	GAS sense	TCT CCC CAG ACT GGC TCT GA	20	60%	146	64°C
	GAS antisense	GCC GAA GTC CAT CCA TCC AT	20	55%
NP_001041	SSTR2 sense	GCC TCC AGG GTC CAT TAA GG	20	60%	101	60°C
	SSTR2 antisense	ATT GAG TGG CTC ATC CGC C	19	58%
NP_001092	ACBT sense	CCA CAC TGT GCC CAT CTA CG	20	60%	99	65°C
	ACBT antisense	AGG ATC TTC ATG AGG TAG TCA GTC AG	26	46%
NT_009759	GAPDH sense	CTC ACG TAT TCC CCC AGG TT	20	55%	161	58°C
	GAPDH antisense	CCC AAA GCA CAT TTC TTC CA	20	45%

^aqPCR, quantitative polymerase chain reaction; MED1, mediator complex subunit 1 gene; STARD3, steroidogenic acute regulatory-related lipid transfer (START) domain containing 3 gene; HER2, human epidermal growth factor receptor 2 gene; GRB7, growth factor receptor-bound protein 7 gene; THRA, thyroid hormone receptor α gene; RARA, retinoic acid receptor α gene; TOP2A, topoisomerase IIα gene; IGFBP4, insulin-like growth factor-binding protein 4 gene; CCR7, C-C chemokine receptor type 7 gene; KRT20, cytokeratin 20 gene; KRT19, cytokeratin 19 gene; GAS, gastrin gene; ACBT, β-actin gene; GAPDH, glyceraldehyde 3-phosphate dehydrogenase gene; SSTR2, somatostatin receptor type II gene.

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ISSN: 1465-542X

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