Johansson_residuals: Johansson HM450K methylation data
In ivabudimir/meNet: Correlation-based network analysis of methylation data
Description
Usage
Format
Details
Source
References
Description
Methylation values based on the data set obtained by Johansson et al.
\insertCitejohansson2013continuousmeNet. Methylation beta values for 728
healthy samples were obtained with Illumina HM450K microarray. In the step of
data preparation and preprocessing, problematic CpGs were removed and the
original beta values were adjusted for age, sex and cell counts.
'meNet::Johansson_residuals' data frame contains the residuals of the
preprocessing analysis for chromosome 21.
Usage
1
Format
A data frame with 3536 rows and 728 columns. Row names are unique CpG
identifiers from the Illumina CG database.
Details
Some CpG sites from chromosome 21 are not included. They may be
omitted in the original data set or removed during the preprocessing.
Moreover, CpG sites are the same as in the 'meNet::Bacalini_betaValues'
data set and thus only the intersection of measured CpGs remains.
Source
Original data set was downloaded from the Gene Expression Omnibus (GEO)
data repository as a data set with accession number GSE87571
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE87571.
References
\insertAllCited
ivabudimir/meNet documentation built on Dec. 20, 2021, 8:03 p.m.
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Description Usage Format Details Source References
Description
Methylation values based on the data set obtained by Johansson et al. \insertCitejohansson2013continuousmeNet. Methylation beta values for 728 healthy samples were obtained with Illumina HM450K microarray. In the step of data preparation and preprocessing, problematic CpGs were removed and the original beta values were adjusted for age, sex and cell counts. 'meNet::Johansson_residuals' data frame contains the residuals of the preprocessing analysis for chromosome 21.
Usage
1 |
Format
A data frame with 3536 rows and 728 columns. Row names are unique CpG identifiers from the Illumina CG database.
Details
Some CpG sites from chromosome 21 are not included. They may be omitted in the original data set or removed during the preprocessing. Moreover, CpG sites are the same as in the 'meNet::Bacalini_betaValues' data set and thus only the intersection of measured CpGs remains.
Source
Original data set was downloaded from the Gene Expression Omnibus (GEO) data repository as a data set with accession number GSE87571 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE87571.
References
\insertAllCitedR Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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