This article is part of the supplement: The International Conference on Intelligent Biology and Medicine (ICIBM): Genomics

Open Access Research

Enrichment-based DNA methylation analysis using next-generation sequencing: sample exclusion, estimating changes in global methylation, and the contribution of replicate lanes

Michael P Trimarchi1, Mark Murphy1, David Frankhouser1, Benjamin AT Rodriguez1, John Curfman1, Guido Marcucci1, Pearlly Yan1* and Ralf Bundschuh2*

Author Affiliations

1 Comprehensive Cancer Center, The Ohio State University, Columbus, Ohio, USA

2 Departments of Physics and Biochemistry, The Ohio State University, Columbus, Ohio, USA

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BMC Genomics 2012, 13(Suppl 8):S6  doi:10.1186/1471-2164-13-S8-S6

Published: 17 December 2012

Additional files

Additional file 1:

Replicate lane correlation, endometrial QC passed vs. QC failed samples. A table showing Pearson correlation of replicate lanes for samples that passed QC vs. failed QC. Data is presented both as a group summary and for individual samples.

Format: XLSX Size: 14KB Download file

Open Data

Additional file 2:

QC table for endometrial cancer study. A listing of CpG enrichment, saturation, 5x coverage, and read information for each sample lane in the endometrial dataset.

Format: XLSX Size: 38KB Download file

Open Data

Additional file 3:

QC table for ovarian study. A listing of CpG enrichment, saturation, 5x coverage, and read information for each sample lane in the ovarian dataset.

Format: XLSX Size: 13KB Download file

Open Data

Additional file 4:

QC, GMI, plasmid RPM table for AML study. A listing of CpG enrichment, saturation, 5x coverage, read information, global methylation indicator, and plasmid reads per million for each sample lane in the AML dataset.

Format: XLSX Size: 12KB Download file

Open Data