The goal of this project is find potential regulator of DNA methylation in cancer patients. As a first step, we examine the LAML data set from Figueroa et al. 2010 and aims to
- identify subgroups of methylation sites with similar expression pattern in LAML patients from Figueroa dataset
- find the gene that are strongly associate with the methylation profile of each subgroup of methylation sites
TCGA LAML dataset is used for validation of the findings.
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GSE 14468 Expression profiling by array
- platform: GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
- coverage: 25626 HpaII amplifiable fragments around promoter regions and imprinted regions of the human genome
- 524 cases of AML
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GSE 18700 Genome-wide DNA methylation profiling
- platform: GPL6604 HG17_HELP_Promoter
- 344 cases of AML, 8 normal control