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Sample GSM879067 Query DataSets for GSM879067
Status Public on Feb 22, 2012
Title maternal whole blood replicate 2
Sample type genomic
 
Channel 1
Source name methylated CpG-island recovery assay (MIRA) enriched, maternal whole blood, 2 of 4 mother-baby pairs
Organism Homo sapiens
Characteristics sample id: NMB6
tissue: maternal whole blood
gender: Female
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, maternal whole blood, 2 of 4 mother-baby pairs
Organism Homo sapiens
Characteristics sample id: NMB6
tissue: maternal whole blood
gender: Female
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-blo_cy5/cy3
Biological replicate 2 of 4 maternal whole blood
US10283824_252984210018_S01_CGH_107_Sep09_2_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 -0.201436939
A_17_P00001275 -0.279242518
A_17_P00001276 0.325539491
A_17_P00001277 -0.781893714
A_17_P00001291 -0.162990482
A_17_P00001296 1.078677118
A_17_P00001297 -0.391605293
A_17_P00001469 -0.339899166
A_17_P00001471 0.484115573
A_17_P00001473 1.232462945
A_17_P00001475 -0.066579767
A_17_P00001581 0.121216793
A_17_P00001582 0.081804355
A_17_P00002456 0.272629759
A_17_P00002530 -0.002528126
A_17_P00002531 -0.57245547
A_17_P00002532 0.308868364
A_17_P00003038 -0.014882914
A_17_P00003072 0.696286266
A_17_P00003073 -0.065578433

Total number of rows: 43477

Table truncated, full table size 1162 Kbytes.




Supplementary file Size Download File type/resource
GSM879067.txt.gz 6.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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