Aberrant DNA methylation associated with silencing BNIP3 gene expression in haematopoietic tumours

doi:10.1038/sj.bjc.6602422

PMC full text:

Br J Cancer. 2005 Mar 28; 92(6): 1165–1172.

Published online 2005 Mar 8. doi: 10.1038/sj.bjc.6602422

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Table 1

Primer sequences for BNIP3 analysis

		Annealing °C (cycles)	Size (bp)
COBRA	F: 5′-TTYGGTYGGAGGAATTTATAGGGTAG-3′	58(3), 56(4), 54(5), 52(26)	156
	R: 5′-CCCTCRCCCACCRCAAAAC-3′
Bisulphite-sequencing	F: 5′-GATATGGYGTTAGAGGGTAATTG-3′	58(3), 56(4), 54(5), 52(26)	294
	R: 5′-CCCTCRCCCACCRCAAAAC-3′
RT–PCR	F: 5′-CCACCTCGCTCGCAGACACCAC-3′	66(3), 64(4), 62(5), 60(23)	317
	R: 5′-GAGAGCAGCAGAGATGGAAGGAAAAC-3′
Real-time PCR	F: 5′-GGACAGAGTAGTTCCAGAGGCAGTTC-3′	60 (40)	90
	R: 5′-GGTGTGCATTTCCACATCAAACAT-3′
ChIP
BNIP3	F: 5′-CCGCGCCGCCTCCTCCGCCTCAC-3′	70 (35)	159
	R: 5′-GCTCCGACCTCCGCTTTCCCACCGCC-3′
GAPDH	F: 5′-TCGGTGCGTGCCCAGTTGAACC-3′	62 (35)	246
	R: 5′-ATGCGGCTGACTGTCGAACAGGAG-3′

Y=C or T, R=A or G; ChIP=Chromatin immunoprecipitation; GAPHD=glyceraldehydes-3 phosphate dehydrogenase; COBRA=combined bisulphite restriction analysis.