Evaluating genome-wide DNA methylation changes in mice by Methylation Specific Digital Karyotyping

BMC Genomics

Table 1 Comparison between MSDK and SAGE

Methylation Specific Digital Karyotyping			Gene Information		Serial Analysis of Gene Expression
MSDK Genomic Tag Sequence	MSDK LMD	MSDKHMD	Gene Symbol	Gene Description	SAGE Tag Sequence	SAGE LMD	SAGE HMD
ACCTACCCAGGCAGCCT	8	0	Zfp503	zinc-finger protein NOLZ1	TTTGTTACAA	5	0
GCAGCGTCCCGGGTCGG	6	0	Hsp90ab1	heat shock protein 90 kDa alpha, B1	GTGAGCCCAT	4	0
AACAGTGGCGGCGGCGG	5	0	Pan3	PAN3 polyA specific ribonuclease subunit	TCGCGTCGCT	7	2
GCGCAGGCGACCCGGGG	6	1	Wsb2	WD repeat and SOCS box-containing 2	GGATGTACCC	5	1
AACAAAAAGGGTCTGTG	2	10	Pde9a	phosphodiesterase 9A	TAAATTCCAC	0	6

Genomic tags are indicated as 17 bp sequences with the corresponding counts as found in each MSDK library. Transcript tags are indicated as 10 bp sequences with the corresponding expression level as found in each SAGE library. Genomic DNA and RNA for MSDK and SAGE analysis was isolated from lung tissue from C57BL/6J adult mice that were prenatally exposed to nutritional changes as described in [9].

ISSN: 1471-2164