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Sample GSM879063 Query DataSets for GSM879063
Status Public on Feb 22, 2012
Title placental tissue replicate 2
Sample type genomic
 
Channel 1
Source name methylated CpG-island recovery assay (MIRA) enriched,placental tissue, 2 of 4 mother-baby pairs
Organism Homo sapiens
Characteristics sample id: NMB6
tissue: placental tissue
sample type: methylation-enriched DNA
Extracted molecule genomic DNA
Extraction protocol DNA was isolated from fresh frozen tissues using standard phenol/chloroform method.
Label cy5
Label protocol The products of whole genome amplification from the total input DNA without MBD enrichment and from methylation-enriched DNA were purified by using DNA purification kit, respectively. The purified DNA fragments were then labeled with cy3-dCTP or cy5-dCTP with Klenow enzyme (Takara) according to the instruction of the manufacturer.
 
Channel 2
Source name input, placental tissue, 2 of 4 mother-baby pairs
Organism Homo sapiens
Characteristics sample id: NMB6
tissue: placental tissue
sample type: total input DNA
Extracted molecule genomic DNA
Extraction protocol DNA was isolated from fresh frozen tissues using standard phenol/chloroform method.
Label cy3
Label protocol The products of whole genome amplification from the total input DNA without MBD enrichment and from methylation-enriched DNA were purified by using DNA purification kit, respectively. The purified DNA fragments were then labeled with cy3-dCTP or cy5-dCTP with Klenow enzyme (Takara) according to the instruction of the manufacturer.
 
 
Hybridization protocol According to the instructions of Agilent Oligo aCGH Hybridization Kit
Scan protocol Scanned on an Agilent G2505C scanner.
Images were quantified using Agilent Feature Extraction Software (version 10.7.3.1).
Description Sample name: NMB6-pla_cy5/cy3
Biological replicate 2 of 4 placental tissue
US10283824_252984210018_S01_CGH_107_Sep09_1_2.txt
Data processing Agilent GeneSpring GX 11.5 was used for background subtraction and LOWESS normalization.Following global mean normalization, probes with an intensity <400 were discarded for further analysis.
 
Submission date Feb 22, 2012
Last update date Feb 22, 2012
Contact name wang liang
E-mail(s) wangliangkexue@163.com
Organization name BioChainBJ
Street address 7A North Yongchang Road BDA
City Beijing
ZIP/Postal code 100176
Country China
 
Platform ID GPL14835
Series (1)
GSE35997 DNA hypermethylation in placental tissues: placental tissues vs. maternal peripheral bloods

Data table header descriptions
ID_REF
VALUE Normalized log2 ratio (Cy5/Cy3) representing test/input.

Data table
ID_REF VALUE
A_17_P00001274 -0.253326341
A_17_P00001275 -0.176996243
A_17_P00001276 1.196641034
A_17_P00001277 0.334087384
A_17_P00001291 -0.019830857
A_17_P00001296 1.691794381
A_17_P00001297 -0.297633275
A_17_P00001469 -0.346553764
A_17_P00001471 0.811305108
A_17_P00001473 1.990023689
A_17_P00001475 0.03895946
A_17_P00001581 0.107850116
A_17_P00001582 0.288675301
A_17_P00002456 0.262064095
A_17_P00002530 0.150576714
A_17_P00002531 -0.486040097
A_17_P00002532 0.295362493
A_17_P00003038 0.151122157
A_17_P00003072 0.673962621
A_17_P00003073 -0.147154872

Total number of rows: 43477

Table truncated, full table size 1163 Kbytes.




Supplementary file Size Download File type/resource
GSM879063.txt.gz 6.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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