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Sample GSM8162610 Query DataSets for GSM8162610
Status Public on Mar 27, 2024
Title 4T1_Followers_rep1
Sample type genomic
 
Source name Follower cells from the 4T1 cell line
Organism Mus musculus
Characteristics subpopulation: Followers
Treatment protocol No treatment
Growth protocol 37 C, 5% CO2; grown in DMEM media with 10% FBS, 1% penicillin-streptomycin
Extracted molecule genomic DNA
Extraction protocol Cells were grown to 70% confluency, trypsinized and then homogenized using QIAshredder (Qiagen #79654). DNA was isolated using the QIAamp DNA Mini Kit (Qiagen #51304).
Label Cy5 and Cy3
Label protocol Standard Illumina protocol
 
Hybridization protocol Bisulfite conversion was performed on the DNA, and the DNA was applied to the Infinium Mouse Methylation BeadChip (Illumina, 20041558)
Scan protocol standard Illumina scanner
Data processing Data from each sample was first pre-processed by R package “sesame” and differentially methylated positions (DMPs) were detected by function “dmpFinder” implemented in R package “minfi”
 
Submission date Mar 22, 2024
Last update date Mar 27, 2024
Contact name Adam Marcus
E-mail(s) aimarcu@emory.edu
Organization name Emory University
Street address 1365 Clifton Rd NE, Building C, Room 4092
City Atlanta
State/province Georgia
ZIP/Postal code 30322
Country USA
 
Platform ID GPL31950
Series (1)
GSE262287 DNA methylation profiles of 4T1 invasively-distinct subpopulations

Data table header descriptions
ID_REF
VALUE Average Beta
Followers_1 MR
Followers_1 UG
Followers_1 UR
Detection Pval

Data table
ID_REF VALUE Followers_1 MR Followers_1 UG Followers_1 UR Detection Pval
cg00101675_BC21 6986 598 1.67E-04
cg00116289_BC21 8796 1619 8.88E-05
cg00211372_TC21 2860 411 3.43E-03
cg00531009_BC21 16086 3013 2.22E-05
cg00747726_TC21 10498 10690 6.66E-05
cg00896209_TC21 15728 1917 2.22E-05
cg00910419_BC21 10203 11709 6.66E-05
cg00920372_BC21 13453 5987 2.22E-05
cg01326836_BC21 14619 1944 2.22E-05
cg01340195_BC21 8256 1138 1.11E-04
cg01603043_TC21 3883 3788 9.10E-04
cg01613817_BC11 11231 1048 4073 676 3.33E-05
cg01683044_BC21 7094 2816 1.44E-04
cg02153806_BC21 7839 1285 1.22E-04
cg02176373_BC21 13416 1484 2.22E-05
cg02187860_TC21 13325 2843 2.22E-05
cg02245762_BC11 330 2812 362 2383 1.13E-02
cg02258130_TC21 4892 618 3.66E-04
cg02380775_BC21 15078 2223 2.22E-05
cg02529685_TC11 1423 12946 349 967 9.01E-05

Total number of rows: 296070

Table truncated, full table size 11183 Kbytes.




Supplementary file Size Download File type/resource
GSM8162610_205145170006_R01C02_Grn.idat.gz 2.6 Mb (ftp)(http) IDAT
GSM8162610_205145170006_R01C02_Red.idat.gz 2.6 Mb (ftp)(http) IDAT
Raw data provided as supplementary file
Processed data included within Sample table

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