| Title: | Placental cell DNA methylation data from GEO accession GSE159526 |
|---|---|
| Description: | 19 term and 9 first trimester placental chorionic villi and matched cell-sorted samples ran on Illumina HumanMethylationEPIC DNA methylation microarrays. This data was made available on GEO accession [GSE159526](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE159526). Both the raw and processed data has been made available on \code{ExperimentHub}. Raw unprocessed data formatted as an RGChannelSet object for integration and normalization using minfi and other existing Bioconductor packages. Processed normalized data is also available as a DNA methylation \code{matrix}, with a corresponding phenotype information as a \code{data.frame} object. |
| Authors: | Victor Yuan [aut, cre] (ORCID: <https://orcid.org/0000-0002-3394-998X>) |
| Maintainer: | Victor Yuan <[email protected]> |
| License: | MIT + file LICENSE |
| Version: | 1.18.0 |
| Built: | 2026-10-10 11:15:26 UTC |
| Source: | https://github.com/bioc/GSE159526 |
RGChannelSetExtended object, and as processed normalized data.19 term and 9 first trimester placental chorionic villi and matched
cell-sorted samples ran on Illumina HumanMethylationEPIC DNA methylation
microarrays. This data was made available on GEO accession
[GSE159526](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE159526).
Both the raw and processed data has been made available on
ExperimentHub. Raw unprocessed data formatted as an RGChannelSet
object for integration and normalization using minfi and other existing
Bioconductor packages. Processed normalized data is also available as a DNA
methylation matrix, with a corresponding phenotype information as a
data.frame object.
dd See the vignette for examples of using these data in differential gene expression analysis.
browseVignettes("GSE62944")
Details of how these data were creates are in the scripts/ directory of the source package.
library(ExperimentHub) hub <- ExperimentHub() x <- query(hub, c("GSE62944", "tumor")) x y <- query(hub, c("GSE62944", "normal")) y ## Not run: ## download resource se_tumor = x[[1]] se_normal = y[[1]] ## End(Not run)library(ExperimentHub) hub <- ExperimentHub() x <- query(hub, c("GSE62944", "tumor")) x y <- query(hub, c("GSE62944", "normal")) y ## Not run: ## download resource se_tumor = x[[1]] se_normal = y[[1]] ## End(Not run)