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Sample GSM5941068 Query DataSets for GSM5941068
Status Public on Aug 26, 2022
Title Vehicle pool OxBS 1
Sample type genomic
 
Source name periosteum
Organism Mus musculus
Characteristics cell type: periosteal cells
method: Oxidative bisulfite sequencing
group: control
agent: vehicle
Treatment protocol Periosteal cells were cultured in the presence of 10µM Antimycin A (AMA) or vehicle as control. The inhibitor was added the day after cell isolation.
Growth protocol Periosteal cells were expanded 1 week after isolation and seeded at 5500 cells/cm2. Three days after seeding, DNA was extracted using DNeasy Blood & Tissue Kit (Qiagen, Hilden, Germany).
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using the Dneasy blood and tissue prep kit, followed by an RNAse H and protienase K treatment
Label Cy5 and Cy3
Label protocol DNA was labelled following manufacturers instructions of the Infinium Mouse Methylation BeadChip
 
Hybridization protocol DNA was hybridized following manufacturers instructions of the Infinium Mouse Methylation BeadChip
Scan protocol Infinium Mouse Methylation BeadChips were scanned at Life & Brain following standard procedures.
Description periosteal cell DNA from mouse treated with vehicle
Data processing Inter-array quantile normalization, low-quality and sample removal and background correction.
 
Submission date Mar 09, 2022
Last update date Aug 26, 2022
Contact name Bernard Thienpont
E-mail(s) bernard.thienpont@kuleuven.be
Organization name KU Leuven Association
Department Human Genetics
Lab Laboratory for Functional Epigenetics
Street address Herestraat 49
City Leuven
State/province Vlaams-Brabant
ZIP/Postal code 3000
Country Belgium
 
Platform ID GPL31950
Series (1)
GSE198222 Investigation of the changes induce by inhibiting mitochondrial respiration on DNA methylation and hydroxymethylation in periosteal cells

Data table header descriptions
ID_REF
VALUE Average Beta
Detection Pval

Data table
ID_REF VALUE Detection Pval
ctl-BS-Conversion-I-HSA_NN11
ctl-BS-Conversion-I-HSA_NN15
ctl-BS-Conversion-I-HSA_NN14
ctl-BS-Conversion-I-HSA_NN13
ctl-BS-Conversion-I-HSA_NN12
ctl-Negative-1286-HSA_NN21
ctl-Negative-1643-HSA_NN21
ctl-Negative-265-HSA_NN21
ctl-Negative-1382-HSA_NN21
ctl-Negative-852-HSA_NN21
ctl-Negative-1665-HSA_NN21
ctl-BS-Conversion-II-83-HSA_NN21
ctl-BS-Conversion-I-M38-HSA_NN21
ctl-GT-Mismatch-40-HSA_NN21
ctl-Negative-1525-HSA_NN21
ctl-GT-Mismatch-3-PM-HSA_NN21
ctl-Negative-1284-HSA_NN21
ctl-Negative-853-HSA_NN21
ctl-NG-cg29532226_BC21
ctl-Negative-1067-HSA_NN21

Total number of rows: 297415

Table truncated, full table size 8574 Kbytes.




Supplementary file Size Download File type/resource
GSM5941068_205723950005_R01C02_Grn.idat.gz 2.6 Mb (ftp)(http) IDAT
GSM5941068_205723950005_R01C02_Red.idat.gz 2.6 Mb (ftp)(http) IDAT
Processed data included within Sample table
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