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Sample GSM7173232 Query DataSets for GSM7173232
Status Public on Oct 18, 2023
Title B cell GSK343 rep1
Sample type genomic
 
Source name B1 GSK
Organism Mus musculus
Characteristics strain: C57BL/6
Treatment protocol CD43- or CD43+ cells were treated with DMSO or 1 uM GSK343 for 48 hours
Growth protocol To separate CD43- from CD43+ cells, washed splenic lymphocytes (5e7) were resuspended in 450 µL FACS buffer and stained with 50 µL CD43 microbeads on ice for 30 min. Cells were washed once, resuspended in 500 µL FACS buffer and passed through an LD column in a VarioMACS separator as per manufacturer’s recommendation. CD43 microbead-labelled non-B cells were eluted from the column by applying the plunger. Purified B cells in the flow-through were incubated in RPMI-1640 supplemented with 10% (v/v) FBS, 55 µM 2-ME, 2 mM L-glutamine, penicillin and streptomycin plus 2 ng/mL IL-4 and BAFF at 37 °C in 5% CO2.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using Monarch genomic DNA purification kit
Label Cy5 and Cy3
Label protocol Standard Illumina protocol
 
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Mouse Methylation 285k Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Data processing RnBeads/3.17
 
Submission date Apr 13, 2023
Last update date Oct 18, 2023
Contact name Frederick Andrew Dick
E-mail(s) fdick@uwo.ca
Organization name Western University
Department Pathology
Lab A4-VRL LRCP
Street address 790 Commissioners Road E
City London
State/province ON
ZIP/Postal code N6A 4L6
Country Canada
 
Platform ID GPL30650
Series (2)
GSE198232 Cytosolic pattern recognition receptors respond to EZH2-inhibition induced viral mimicry response that eliminates splenic B cells
GSE229684 Splenic CD43- B cells exhibit DNA hypomethylation specifically at repetitive elements compared to CD43+ cells

Data table header descriptions
ID_REF
VALUE Normalized beta values with wn.dasen method
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg36602902_BC11 0.76761212 0
cg36603287_TC21 0.802284185 0
cg36603393_BC21 0.849437464 0
cg36603791_TC21 0.853020183 0
cg36603848_TC21 0.921712361 0
cg36604001_TC21 0.845998862 0
cg36604489_TC21 0.715045439 0
cg36604536_TC21 0.664024574 0
cg36604958_TC21 0.859856654 0
cg36605010_TC21 0.672368614 0
cg36605130_BC21 0.714138889 0
cg36605172_BC21 0.915770716 0
cg36605223_TC21 0.896200083 0
cg36605321_BC21 0.83912171 0
cg36605802_TC21 0.828525552 0
cg36605876_BC11 0.096467782 0
cg36605883_TC21 0.153430099 0
cg36605884_BC21 0.174869597 0
cg36605929_TC21 0.148861214 0
cg36606503_BC21 0.655894464 0

Total number of rows: 247314

Table truncated, full table size 7218 Kbytes.




Supplementary file Size Download File type/resource
GSM7173232_205832350006_R02C01_Grn.idat.gz 2.6 Mb (ftp)(http) IDAT
GSM7173232_205832350006_R02C01_Red.idat.gz 2.5 Mb (ftp)(http) IDAT
Processed data included within Sample table

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