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MSNP data for normal blood, normal bone marrow, CD34+ cells and placenta samples

ABSTRACT: A novel method for detecting genome-wide ASM (allele-specific methylation) was developed by modification of the Affymetrix 250K StyI SNP arrays. Using this method, and the above mentioned samples, we consistently detected ASM in non-imprinted regions of the genome. Interestingly, ASM appears to be strongly correlated with the SNP sequences in cis.

ORGANISM(S): Homo sapiens

PROVIDER: GSE11409 | GEO | 2008/05/10

SECONDARY ACCESSION(S): PRJNA106541

REPOSITORIES: GEO

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MSNP data for normal blood, normal bone marrow, CD34+ cells and placenta samples

Project description:A novel method for detecting genome-wide ASM (allele-specific methylation) was developed by modification of the Affymetrix 250K StyI SNP arrays. Using this method, and the above mentioned samples, we consistently detected ASM in non-imprinted regions of the genome. Interestingly, ASM appears to be strongly correlated with the SNP sequences in cis. DNA from various sources (6 normal blood, 2 normal bone marrow, 2 CD34+ bone marrow, and 3 placenta samples) was genotyped and ASM was scored as an allele call conversion from 'AB' (heterozygous) to 'AA' or 'BB' (homozygous) in the StyI+HpaII genomic representation, compared to the StyI-only representation. Each sample was subjected to 5 runs of genotyping on the 250K StyI array, including 2 StyI alone, 2 StyI+HpaII and 1 StyI+MspI.

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