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Sample GSM879065 Query DataSets for GSM879065
Status Public on Feb 22, 2012
Title placental tissue replicate 4
Sample type genomic
 
Channel 1
Source name methylated CpG-island recovery assay (MIRA) enriched, placental tissue, 4 of 4 mother-baby pairs
Organism Homo sapiens
Characteristics sample id: NMB8
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, 4 of 4 mother-baby pairs
Organism Homo sapiens
Characteristics sample id: NMB8
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: NMB8-pla_cy5/cy3
Biological replicate 4 of 4 placental tissue
US10283824_252984210018_S01_CGH_107_Sep09_1_4.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 -0.111628493
A_17_P00001275 -0.124338143
A_17_P00001276 0.752772412
A_17_P00001277 0.350440953
A_17_P00001291 -0.197859705
A_17_P00001296 1.315680414
A_17_P00001297 -0.297710536
A_17_P00001469 -0.205829582
A_17_P00001471 0.733984897
A_17_P00001473 1.359474162
A_17_P00001475 -0.105637391
A_17_P00001581 0.281679148
A_17_P00001582 0.113554888
A_17_P00002456 0.422220202
A_17_P00002530 -0.167155217
A_17_P00002531 -0.375590378
A_17_P00002532 0.41457463
A_17_P00003038 -0.015832986
A_17_P00003072 0.778515846
A_17_P00003073 -0.120859123

Total number of rows: 43477

Table truncated, full table size 1162 Kbytes.




Supplementary file Size Download File type/resource
GSM879065.txt.gz 6.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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