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Sample GSM1954914 Query DataSets for GSM1954914
Status Public on Oct 12, 2016
Title NESCs_12d_rep1
Sample type RNA
 
Source name Proliferative phase normal endometrium, 12 days, replicate1
Organism Homo sapiens
Characteristics cell type: proliferative phase normal endometrium
gender: Female
age: 37y
treatment: 12d 10% charcoal-stripped heat-inactivated FBS
Treatment protocol NESCs were obtained from premenopausal patients who had undergone hysterectomies for leiomyoma and had no evidence of endometriosis. NESCs were isolated from the corresponding tissues by enzymatic digestion. NESCs were cultured in DMEM supplemented with 100 IU/ml of penicillin, 50 mg/ml of streptomycin, and 10% charcoal-stripped heat-inactivated fetal FBS at 37°C in 5% CO2 in air.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from tissues using TRIzol Reagent (nitrogen) and purified using SV Total RNA Isolation System (Promega)
Label Cy3
Label protocol cRNA was amplified and labelled using a Low input Quick Amp Labelling Kit (Agilent Technologies).
 
Hybridization protocol cRNA was hybridized to a 60K 60-mer oligomicroarray (SurePrint G3 Human Gene Expression Microarray 8x60K v2; Agilent Technologies) according to the manufacturer's instructions.
Scan protocol The hybridized microarray slides were scanned using an Agilent scanner. The relative hybridization intensities and background hybridization values were calculated using Feature Extraction Software version 9.5.1.1 (Agilent Technologies).
Description mRNA expression after 12d_10% charcoal-stripped heat-inactivated FBS
Data processing The scanned images were analyzed with Feature Extraction Software 9.5.1.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. The raw signal intensities and flags for each probe were calculated from the hybridization intensities and spot information according to the procedures recommended by Agilent Technologies using the Flag criteria in the GeneSpring Software. The raw signal intensities of all samples were normalized by the quantile algorithm with the Bioconductor.
 
Submission date Nov 25, 2015
Last update date Oct 12, 2016
Contact name yoko aoyagi
E-mail(s) yokoao@oita-u.ac.jp
Organization name oita university
Street address 1-1 Idaigaoka hamasamachi
City yufu city
ZIP/Postal code 879-5593
Country Japan
 
Platform ID GPL17077
Series (2)
GSE75425 mRNA expression profiles in decidualized and non-decidualized normal endometrial stromal cells (NESCs).
GSE75427 Expression profiles in decidualized and non-decidualized endometriotic cyst stromal cells (ECSCs) and normal endometrial stromal cells (NESCs)

Data table header descriptions
ID_REF
VALUE quantile normalized signal, non-log scaled and ABS CALL.
ABS_CALL

Data table
ID_REF VALUE ABS_CALL
A_19_P00315452 3306.157875 P
A_19_P00315459 88.9485075 P
A_19_P00315482 3.111030875 A
A_19_P00315492 12.26563075 A
A_19_P00315493 15.50635625 A
A_19_P00315502 367.1669184 P
A_19_P00315506 62.04087875 P
A_19_P00315518 2.894329625 A
A_19_P00315519 3.200007875 A
A_19_P00315524 14.60727188 A
A_19_P00315528 5.116290301 A
A_19_P00315529 3.396196375 A
A_19_P00315538 2.949482375 A
A_19_P00315541 4.404212 A
A_19_P00315543 27.42066 P
A_19_P00315550 205.4499948 P
A_19_P00315551 64.93108125 P
A_19_P00315554 3.06251525 A
A_19_P00315581 3193.52725 P
A_19_P00315583 41.1713075 P

Total number of rows: 50599

Table truncated, full table size 1323 Kbytes.




Supplementary file Size Download File type/resource
GSM1954914_US11030397_253949440247_S01_GE1_107_Sep09_1_1.txt.gz 12.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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