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Sample GSM7034170 Query DataSets for GSM7034170
Status Public on Apr 24, 2024
Title E12.5 Male IVF Placenta 7
Sample type genomic
 
Source name E12.5 Placenta Male IVF 7
Organism Mus musculus
Characteristics gender: Male
group: IVF
tissue: placenta
age: E12.5
Treatment protocol Placentas were collected at E182.5, snap frozen in liquid nitrogen and stored at -80C for DNA extraction.
Growth protocol All animals were housed in polysulfone cages containing drinking water and chow (Laboratory Irradiated Rodent Diet 5LG4, LabDiet) ad libitum.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted and purified from Placentas samples using Phenol:Chloroform according to lab protocols. Then samples were Bisulfite-treated using Qiagen EpiTect Bisulfite Conversion Kit.
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol:
 
Hybridization protocol Bisulfite converted DNA was amplified, fragmented, and hybridized to Illumina Infinium Mouse285 Methylation BeadChip 12v1-0 using standard Illumina Protocol
Scan protocol Illumina iScan System
Description Bisulfite treated
Male-IVF-B12A
Genomic DNA from E12.5 Male IVF Placenta 7
Data processing SeSAMe R Package
Beta values of individual probe for each sample. Probes that did not pass SeSAMe quality control pOOBAH approach are masked with NA
 
Submission date Feb 08, 2023
Last update date Apr 24, 2024
Contact name Eric Alejandro Rhon Calderon
E-mail(s) eric.rhoncalderon@pennmedicine.upenn.edu
Phone 2152909019
Organization name University of Pennsylvania
Department Cell and Developmental Biology
Lab Bartolomei Lab
Street address 3400 Civic Center Blvd, Bldg 421, Floor 9-175
City Philadelphia
State/province Pennsylvania
ZIP/Postal code 19104
Country USA
 
Platform ID GPL31191
Series (2)
GSE224844 Trophectoderm biopsies of blastocysts for preimplantation genetic testing following in vitro fertilization and embryo culture increases epigenetic dysregulation in a mouse model [array]
GSE225318 Trophectoderm biopsies of blastocysts for preimplantation genetic testing following in vitro fertilization and embryo culture increases epigenetic dysregulation in a mouse model

Data table header descriptions
ID_REF
VALUE Beta value

Data table
ID_REF VALUE
cg00101675_BC21 0.822879482
cg00116289_BC21 0.74356236
cg00211372_TC21 0.8864038
cg00531009_BC21 0.726286865
cg00747726_TC21 0.351147169
cg00896209_TC21 0.844719281
cg00910419_BC21 0.095561929
cg00920372_BC21 0.323263883
cg01326836_BC21 0.185699562
cg01340195_BC21 0.518925179
cg01603043_TC21 0.5280247
cg01613817_BC11 0.413352249
cg01683044_BC21 0.13038242
cg02153806_BC21 0.285048488
cg02176373_BC21 0.08963953
cg02187860_TC21 0.655022966
cg02245762_BC11
cg02258130_TC21 0.909561704
cg02380775_BC21 0.6856284
cg02529685_TC11 0.472714054

Total number of rows: 293199

Table truncated, full table size 7363 Kbytes.




Supplementary file Size Download File type/resource
GSM7034170_Male-IVF-B12A_Grn.idat.gz 2.5 Mb (ftp)(http) IDAT
GSM7034170_Male-IVF-B12A_Red.idat.gz 2.6 Mb (ftp)(http) IDAT
Processed data included within Sample table
Processed data are available on Series record

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