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Sample GSM2222300 Query DataSets for GSM2222300
Status Public on Nov 01, 2017
Title SD-RSA_20970
Sample type genomic
 
Channel 1
Source name Recurrent miscarriage couples
Organism Homo sapiens
Characteristics tissue: blood
clinical indication: recurrent miscarriage couples
Treatment protocol Samples were untreated
Growth protocol Uncultured samples of chorionic villus sampling, amniotic fluid, placental tissue and blood were used for direct DNA extraction
Extracted molecule genomic DNA
Extraction protocol Genomic DNA extraction done by Qiagen DNeasy® Blood & Tissue Kit following manufacturer's instructions
Label Cy5
Label protocol Procedure for DNA fragmentation and labelling: 300 ng of Genomic DNA samples were heat fragmented. The fragmented DNA samples were labeled with Cy5 and the corresponding fragmented reference controls were labeled Cy3 using Agilent SureTag DNA Labeling Kit.
 
Channel 2
Source name healthy Chinese adult
Organism Homo sapiens
Characteristics tissue: blood
clinical indication: healthy
Treatment protocol Samples were untreated
Growth protocol Uncultured samples of chorionic villus sampling, amniotic fluid, placental tissue and blood were used for direct DNA extraction
Extracted molecule genomic DNA
Extraction protocol Genomic DNA extraction done by Qiagen DNeasy® Blood & Tissue Kit following manufacturer's instructions
Label Cy3
Label protocol Procedure for DNA fragmentation and labelling: 300 ng of Genomic DNA samples were heat fragmented. The fragmented DNA samples were labeled with Cy5 and the corresponding fragmented reference controls were labeled Cy3 using Agilent SureTag DNA Labeling Kit.
 
 
Hybridization protocol After clean up and QC check, Cy3 and Cy5 labeled DNA samples were mixed together with Cot-1 DNA, blocking agent and hybridization buffer using Agilent Oligo aCGH/ChIP-on-Chip Hybridization kit according to manufacturer's protocol. Samples were hybridized on array for 24 hours at 65oC. After hybridization, slides were washed sequential
Scan protocol Probe is designed based on hg19. Scanned on an Agilent G2505C scanner.
Data processing Agilent Feature Extraction Software (v 11.5.1.1) was used for background subtraction
 
Submission date Jul 01, 2016
Last update date Nov 01, 2017
Contact name Zirui DONG
E-mail(s) elvisdong@link.cuhk.edu.hk
Organization name The Chinese University of Hong Kong
Department Dept. of Obstetrics and Gynaecology
Street address Shatin, N.T.
City Hong Kong
ZIP/Postal code 999077
Country China
 
Platform ID GPL20899
Series (1)
GSE83941 Chromosomal microarray analysis for validation of the WGS-based CNV detection results in recurrent miscarriage couples

Data table header descriptions
ID_REF
VALUE Dye was normalized automatically according to the dye norm list in eArray. Value shows indicated the log10 ratio (Cy5/Cy3), representing test/reference

Data table
ID_REF VALUE
A_16_P01445300 -5.60E-03
A_14_P118521 -2.96E-02
A_16_P16685532 -3.46E-03
A_16_P20918307 -4.27E-02
A_16_P38382650 3.52E-02
CUHK_P118879 3.54E-02
A_16_P00158896 -1.21E-02
A_16_P20235323 6.17E-03
A_16_P20304748 -1.07E-03
A_16_P19030974 3.36E-02
A_16_P39316284 2.20E-02
A_16_P37551776 -7.51E-03
A_16_P20368573 3.27E-02
A_16_P39258589 -5.29E-02
A_16_P16004212 3.86E-02
A_16_P20812434 2.80E-02
A_14_P110933 8.24E-03
A_16_P15992034 -3.48E-02
A_16_P00190456 -6.23E-02
A_16_P03170257 5.41E-02

Total number of rows: 43004

Table truncated, full table size 1013 Kbytes.




Supplementary file Size Download File type/resource
GSM2222300_SD-RSA_20970.txt.gz 5.6 Mb (ftp)(http) TXT
Processed data included within Sample table

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