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Sample GSM782486 Query DataSets for GSM782486
Status Public on Jun 04, 2012
Title EndometrialStromalCell_Choco_Eutopic_2-Ctrl
Sample type RNA
 
Source name eutopic endometrial stromal cell from patients with ovarian endometrioma, untreated with H2O2
Organism Homo sapiens
Characteristics cell type: eutopic endometrial stromal
age: 25
cycle phase: early proliferative
diagnosis: endometriosis
r-afs stage(score): III(20)
Treatment protocol After 24 hours of incubation, medium was exchanged with Phenol Red-free DMEM(Sigma D5921) + 1uM hydrogen peroxide + 200IU/ml potassium benzylpenicillin(Meiji) + 200ug/ml streptomycin sulfate(Meiji) + 2.5mg/ml amphotericin B(Sigma A2942). After 60 hours of incubation, RNA was collected. Supplementary hydrogen peroxide was added to medium every 48 hours. Control cells were incubated in Phenol Red-free DMEM(Sigma D5921) + 200IU/ml potassium benzylpenicillin(Meiji) + 200ug/ml streptomycin sulfate(Meiji) + 2.5mg/ml amphotericin B(Sigma A2942) for 60 hours and its RNA was collected.
Growth protocol Endometrial stromal cells were incubated in DMEM (Sigma D5921) + 10% FBS (BioWest) + 200IU/ml potassium benzylpenicillin (Meiji) + 200ug/ml streptomycin sulfate (Meiji) + 2.5mg/ml amphotericin B (Sigma A2942) for 24 hours.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using RNeasy Mini(QIAGEN).
Label Cy3
Label protocol According to the manufacturer’s protocol (One-Color Microarray-Based Gene Expression Analysis (Quick Amp Labeling), Version 5.7, March 2008).
 
Hybridization protocol According to the manufacturer’s protocol (One-Color Microarray-Based Gene Expression Analysis (Quick Amp Labeling), Version 5.7, March 2008).
Scan protocol According to the manufacturer’s protocol (One-Color Microarray-Based Gene Expression Analysis (Quick Amp Labeling), Version 5.7, March 2008, Agilent Scanner Settings).
Data processing Microarray data were analyzed following import into GeneSpring 11.5 software (Agilent Technologies)
Threshold: 1.0
Logbase: 2
Technology: Agilent.SingleColor.14850
Normalization: Shift to 75 percentile
Baseline Transformation: None
 
Submission date Aug 18, 2011
Last update date Jun 04, 2012
Contact name Shinya Toyokuni
E-mail(s) akatsuka@med.nagoya-u.ac.jp
Organization name Nagoya University
Department Pathology
Street address 65 Tsuruma-Cho, Showa-Ku
City Nagoya
State/province Aichi
ZIP/Postal code 466-8550
Country Japan
 
Platform ID GPL6480
Series (1)
GSE31515 Transcriptome analysis of endometriotic stromal cells treated with hydrogen peroxide

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
A_24_P66027 -0.96788883
A_32_P77178 -5.330244
A_23_P212522 -0.35280323
A_24_P934473 -5.948271
A_24_P9671 3.3336363
A_32_P29551 -7.479986
A_24_P801451 -1.1612139
A_32_P30710 6.331641
A_32_P89523 -6.0930214
A_24_P704878 -7.914283
A_32_P86028 5.3112135
A_24_P470079 -7.5255346
A_23_P65830 0.39570618
A_23_P109143 4.997672
A_24_P595567 -5.2025394
A_24_P391591 -5.443118
A_24_P799245 -8.422215
A_24_P932757 -8.429167
A_24_P835500 2.895257
A_23_P54340 -7.2495813

Total number of rows: 41091

Table truncated, full table size 926 Kbytes.




Supplementary file Size Download File type/resource
GSM782486_cESC2-c.txt.gz 9.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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