data-methData: DNA methylation data
In MalgorzataOles/BloodCancerMultiOmics2017: "Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oles M, Lu J et al. - experimental data and complete analysis
methData R Documentation
DNA methylation data
Description
The data set includes methylation data for the 5000 most variable CpG sites of
the CLL samples. The data was produced with the use of either 450k or 850k
methylation arrays.
Preprocessing of raw IDAT files was made using minfi R/Bioconductor package
version 1.19.16. Intensities were normalized using the functional
normalization algorithm. CpG sites containing SNPs inside the probe body
were removed.
Usage
methData
Format
"RangedSummarizedExperiment" object with Features 5000 and Samples 196.
Author(s)
Andreas Mock, Malgorzata Oles
References
Oakes CC, Seifert M, Assenov Y, Gu L, Przekopowitz M, Ruppert AS, Wang Q,
Imbusch CD, Serva A, Koser SD, et al. DNA methylation dynamics during
B cell maturation underlie a continuum of disease phenotypes in chronic
lymphocytic leukemia. Nat Genet. 2016;48(3):253-64
MalgorzataOles/BloodCancerMultiOmics2017 documentation built on March 29, 2024, 2:29 p.m.
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| methData | R Documentation |
DNA methylation data
Description
The data set includes methylation data for the 5000 most variable CpG sites of the CLL samples. The data was produced with the use of either 450k or 850k methylation arrays. Preprocessing of raw IDAT files was made using minfi R/Bioconductor package version 1.19.16. Intensities were normalized using the functional normalization algorithm. CpG sites containing SNPs inside the probe body were removed.
Usage
methData
Format
"RangedSummarizedExperiment" object with Features 5000 and Samples 196.
Author(s)
Andreas Mock, Malgorzata Oles
References
Oakes CC, Seifert M, Assenov Y, Gu L, Przekopowitz M, Ruppert AS, Wang Q, Imbusch CD, Serva A, Koser SD, et al. DNA methylation dynamics during B cell maturation underlie a continuum of disease phenotypes in chronic lymphocytic leukemia. Nat Genet. 2016;48(3):253-64
R 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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