Epigenetic inactivation and aberrant transcription of CSMD1 in squamous cell carcinoma cell lines

Table 1 PCR primers used for COBRA analysis of CSMD1 CpG island

PCR round	forward		reverse		annealing temp	[MgCl₂] (mM)	amplicon size (bp)	# of CpG's	# BstU1 sites	# Taq1 sites
Amplicon 1
1 st	prm1998	taagttaggtagggggttgtttt	prm1999	aaccactacaaaactaaactact	45°C	1.5	626
2 nd	prm2000	ggaagggagattaaaggatgg	prm2001	aaactcaaccatccttacccacaa	58°C	1.5	298	19	1	4
Amplicons 2 and 3
1 st	prm1942	gagtagtttagttttgtagtggt	prm1943	tattaaattcctttctccttaaca	45°C	2.0	594
2 nd	prm2006	agtagtttagttttgtagtggtt	prm2007	caatcatatctacaaatactcc	45°C	2.0	225	20	2	1
2 nd	prm1954	tgtggagtatttgtagatatgattg	prm1968	cctttctccttaacaccctatacta	55°C	1.5	388	31	4	1

ISSN: 1475-2867