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Series GSE43226 Query DataSets for GSE43226
Status Public on Jun 21, 2013
Title Utility of HM450 BeadArray on Mouse Samples
Platform organism Homo sapiens
Sample organisms Homo sapiens; Mus musculus
Experiment type Methylation profiling by genome tiling array
Summary Illumina Infinium Human Methylation (HM) BeadChips are a widely used platform for measuring genome-scale DNA methylation, particularly in relation to epigenetic GWAS (EWAS) studies. The methylation profile of human samples can be assessed accurately and reproducibly using the HM27 BeadChip (27,578 CpG sites) or its successor, the HM450 BeadChip (485,577 CpG sites). To date no mouse equivalent has been developed greatly hindering the application of this methodology to the wide range of valuable murine models of disease and development in existence. We found 1,308 and 13,715 probes from HM27 and HM450 BeadChip uniquely matched the reference mouse genome (mm9) respectively. We demonstrate reproducible measurements of DNA methylation at these probes in a range of mouse tissue samples and in a murine cell line model of acute myeloid leukaemia. In the absence of a mouse counterpart, the Infinium HumanMethylation BeadChip arrays have utility in carrying out methylation profiling in non-human species.
Overall design GPL13534: 12 samples analysed in total. Two array replicates, two bisulfite conversion replicates and two biological replicates of mouse samples. 1 Human sample analysed in parallel.

GPL8490: 3 samples
Contributor(s) Wong NC
Citation(s) 23639479
Submission date Jan 02, 2013
Last update date Mar 22, 2019
Contact name Nicholas C Wong
Organization name Monash University
Department Monash Bioinformatics Platform, Central Clinical School
Street address Wellington Road
City Clayton
State/province Victoria
ZIP/Postal code 3800
Country Australia
Platforms (2)
GPL8490 Illumina HumanMethylation27 BeadChip (HumanMethylation27_270596_v.1.2)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (15)
GSM1058977 BoneMarrowBisulfite1_rep1
GSM1058978 BoneMarrowBisulfite1_rep2
GSM1058979 BoneMarrowBisulfite2
BioProject PRJNA185415

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE43226.txt.gz 159 b (ftp)(http) TXT
GSE43226_GPL13534_Matrix_Signal_Intensities.txt.gz 31.7 Mb (ftp)(http) TXT
GSE43226_GPL8490_Matrix_Signal_Intensities.txt.gz 655.4 Kb (ftp)(http) TXT
GSE43226_RAW.tar 188.9 Mb (http)(custom) TAR
Processed data included within Sample table

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