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Sample GSM2500348 Query DataSets for GSM2500348
Status Public on Jun 23, 2017
Title DNA methylation in iAs-rev cells_ Replicate 2
Sample type genomic
 
Source name Cervical carcinoma
Organism Homo sapiens
Characteristics cell line: HeLa
cell type: cervical carcinoma cell line
treatment: inorganic arsenic (iAs), then reverse treated
Treatment protocol iAsT cells were treated with 0.5 uM Sodium Arsenite for 36 days; iAsT-rev cells were treated with 0.5 uM Sodium Arsenite for 36 days and were then treated with dI water, cells were harvested 10 days after reversal of treatment.
Growth protocol Cell cultures were incubated at 37 degree with humidified air and 5% CO2. Cells were harvested after each treatment. Cells were grown ensuring that 95% of the cells were viable. Harvested cells were centrifuged for five minutes at 200 X g.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using Qiagen DNeasy kit according to manufacturer's instructions.
Label unknown
Label protocol Standard Illumina Protocol.
 
Hybridization protocol Bisulphite-converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation EPIC BeadChip using standard Illumina EPIC protocol.
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina HiScan.
Data processing Minfi preprocessFunNorm.
 
Submission date Feb 22, 2017
Last update date May 28, 2018
Contact name Yvonne Nsokika Fondufe-Mittendorf
E-mail(s) y.fondufe-mittendorf@uky.edu
Phone 8593230091
Organization name University of Kentucky
Department Biochemistry
Lab Mittendorf
Street address 741 South Limestone dr.
City Lexington
State/province KY
ZIP/Postal code 40536-0509
Country USA
 
Platform ID GPL21145
Series (1)
GSE95232 Transient and permanent changes in DNA methylation patterns in inorganic arsenic-mediated epithelial-to-mesenchymal transition

Data table header descriptions
ID_REF
VALUE Beta value
Pval

Data table
ID_REF VALUE Pval
cg18478105 0.0259060096119644 0
cg09835024 0.0604472657312246 0
cg14361672 0.92000355467586 0
cg01763666 0.895404938501467 0
cg12950382 0.807743414020593 0
cg02115394 0.0482026167278589 0
cg25813447 0.0341853375227767 0
cg07779434 0.060595121851479 0
cg13417420 0.977858423124859 0
cg12480843 0.0236111297623934 0
cg26724186 0.943559743132274 0
cg24133276 0.030347731892428 0
cg13773083 0.353298672722782 0
cg17236668 0.964395526359309 0
cg19607165 0.898283906542177 0
cg11073926 0.0643588050017137 0
cg08770523 0.0286077843478937 0
cg24040570 0.0323570691262081 0
cg24652288 0.66700894609516 0
cg15998406 0.88360114654215 0

Total number of rows: 820374

Table truncated, full table size 25442 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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