Bronchial Epithelial Cell DNA Methylation
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Corresponding Organization : University of California, Berkeley
Other organizations : University of California, San Francisco, Environmental Protection Agency, Harvard University
Variable analysis
- Exposure to either clean air or DE (diesel exhaust)
- DNA methylation β-value, or the proportion of cytosine methylated, at 484,531 CpGs
- Participants underwent a standard research bronchoscopy with brush biopsy to obtain bronchial epithelial cells, following a standard protocol [22, 23].
- DNA was extracted using the Gentra Puregene Buccal Cell Kit (Qiagen, Inc.), and samples were stored frozen at −80°C before analysis.
- Background correction using noob and dye bias correction, as well as correcting for probe design bias arising from Type I and Type II probes with the Beta-mixture quantile normalization (BMIQ) method [24, 25].
- No positive or negative controls were explicitly mentioned in the provided information.
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