Array-based functional genomics data
KSE100114
Title
DNA methylome in MZ twin
Study
|
Title
|
DNA methylome in MZ twin |
|---|---|
|
Summary
|
Bisulphite converted DNA from the 94 samples were hybridised to the Illumina Infinium 850k Human Methylation Beadchip
|
|
Experimental design
|
reference design
|
|
Experimental type
|
methylation profiling by array
|
|
Organism
|
Homo sapiens |
|
Source name
|
Blood |
|
Contributor(s)
|
- |
|
Submission type
|
Complete |
Protocols
|
Accession
|
Type
|
Description
|
|---|---|---|
| KSP10000142 | Nucleic acid labeling protocol |
Standard Illumina Protocol
|
| KSP10000143 | Nucleic acid hybridization to array protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
|
| KSP10000144 | Array scanning and feature extraction protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
|
| KSP10000140 | Sample collection protocol |
missing
|
| KSP10000141 | Nucleic acid extraction protocol |
genomic DNA was extracted and purified from blood samples using Qiagen DNeasy Kit according to standard instructions
|
| KSP10000145 | Normalization data transformation protocol |
For DNA methylome data analysis, CpG methylation values were calculated as average-b values using the minfi package (version 1.26.2) of R software, and we used the subset-quantile within array normalization (SWAN) to reduce technical variations within and between arrays.
|
Detailed Experiment information
Toggle table
Accession
|
BioSamples
|
|
|---|---|
|
BioProject
|
KAP240383 |
| File Name | Sample IDS | Size | Format | File type | Release date | Download | |
|---|---|---|---|---|---|---|---|
|
206390540111_R07C01_Grn.idat
|
13,677,890 13,677,890 | idat |
Raw data file
|
2023-02-28 | |||
|
206390540111_R07C01_Red.idat
|
13,677,890 13,677,890 | idat |
Raw data file
|
2023-02-28 | |||
|
microarray_meth_value.txt
|
1,174,617,103 1,174,617,103 | txt |
Epigenomic analysis file
|
2023-02-28 |