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Sample GSM850533 Query DataSets for GSM850533
Status Public on Nov 06, 2012
Title PCOS, biological rep 4
Sample type RNA
 
Source name PCOS, biological rep 4
Organism Homo sapiens
Characteristics cell type: granulosa cells
disease: Polycystic ovary Syndrome
Treatment protocol Normal and PCOS women were treated with FSH after pituitary downregulation until E2 levels reached 300 pg/mL per dominant follicles. hCG was then administered followed by transvaginal oocyte retrieval.
Growth protocol Ovarian aspirates were collected after oocyte retrieval from the consented normal and PCOS patients in the operating room and processed immediately for granulosa cell isolation and RNA extraction to minimize RNA degradation. RNA was stored at -80┬░C until use.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.The precipitated product was further purified using RNeasy Mini Kit (Qiagen, CA).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45 C on the HG-133 Plus 2 Affymetrix GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using GeneChip® Scanner 7G by Affymetrix.
Description Gene expression using RMA method
Data processing The CEL files from the two Affymetrix series were combined using the matchprobes package in the R programming environment. Thereafter, the RMA method in the R affy package was used to obtain probe set expression summaries.
 
Submission date Dec 19, 2011
Last update date Nov 06, 2012
Contact name Rita Singh
E-mail(s) ghrika_s@yahoo.com
Organization name University of Delhi
Department Department of Zoology
Lab Molecular Reproduction
Street address Department of Zoology
City Delhi
ZIP/Postal code 110007
Country India
 
Platform ID GPL570
Series (1)
GSE34526 Differential Gene Expression in Granulosa Cells from Polycystic Ovary Syndrome Patients with and without Insulin Resistance: Identification of Susceptibility Gene Sets through Network Analysis

Data table header descriptions
ID_REF
VALUE Robust multiarray average (RMA)

Data table
ID_REF VALUE
1007_s_at 2102.58405
1053_at 306.3548987
117_at 1801.416945
121_at 469.711238
1255_g_at 9.522007775
1294_at 690.3517297
1316_at 120.7465617
1320_at 212.4482171
1405_i_at 3422.743061
1431_at 35.01078748
1438_at 28.17287957
1487_at 481.2332678
1494_f_at 64.31515295
1552256_a_at 18629.81714
1552257_a_at 2493.071457
1552258_at 199.7762575
1552261_at 37.80314749
1552263_at 1256.929682
1552264_a_at 1213.739515
1552266_at 87.37914123

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM850533_RSN-17.CEL.gz 4.4 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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