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Sample GSM2070604 Query DataSets for GSM2070604
Status Public on Feb 24, 2016
Title Stealth-D3 vs Stealth-CTR cells (dye-swap)
Sample type RNA
 
Channel 1
Source name 1192B
Organism Mus musculus
Characteristics cell line: BCC cell line G2N2C
transfection: Stealth-ctr
Treatment protocol BCC cells were transfected with D3-stealth and ctr-stealth oligos and harvested 48 hours following the transfection.
Growth protocol BCC cells were cultured under low calcium conditions with 8% Ca2+-chelated fetal bovine serum and keratinocyte growth factor
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions. Next we purifed with the RNeasy MinElute Cleanup Kit.
Label Cy3
Label protocol miRCURY LNA (TM) microRNA Array Power Labeling Kit
 
Channel 2
Source name 1192A
Organism Mus musculus
Characteristics cell line: BCC cell line G2N2C
transfection: Stealth-D3
Treatment protocol BCC cells were transfected with D3-stealth and ctr-stealth oligos and harvested 48 hours following the transfection.
Growth protocol BCC cells were cultured under low calcium conditions with 8% Ca2+-chelated fetal bovine serum and keratinocyte growth factor
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions. Next we purifed with the RNeasy MinElute Cleanup Kit.
Label Cy5
Label protocol miRCURY LNA (TM) microRNA Array Power Labeling Kit
 
 
Hybridization protocol miRCURY LNA (TM) microRNA Array microarray kit instruction manual v9.2
Scan protocol Scanner=GenePix 4000B [92213]

Description Each channel represents: transfected BCC cells, pool of 3 different experiments
Slide13768401 1192A cy5 vs 1192B cy3
1192A = Stealth-D3 transfected BCC cells, 1192B = Stealth-ctr transfected BCC cells
Data processing Genepix software package was used to generate an intensity value for each probe by taking the median spot intensity and subtracting the median local background. Bad spots or areas of the array with obvious defects were manually flagged. Flagged spots were not included in subsequent analyses.
LOWESS normalized, background subtracted data obtained from log2 of processed Cy5 signal/processed Cy3 signal. Agilent software was used.
 
Submission date Feb 24, 2016
Last update date Feb 24, 2016
Contact name Monica Dentice
E-mail(s) monica.dentice@unina.it
Phone 0817463848
Organization name University of Naples "Federico II"
Department Department of Clinical Medicine and Surgery
Street address Via S. Pansini 5
City Naples
ZIP/Postal code 80131
Country Italy
 
Platform ID GPL7724
Series (1)
GSE78265 Murine BCC Cells: dio3 interfered vs control

Data table header descriptions
ID_REF
VALUE normalized log2 (Stealth-D3/Stealth-CTR) ratio

Data table
ID_REF VALUE
13138 -6.997938468
17750 0.711522651
10940 -0.006506657
10971 0.141630967
10997 0.705368691
11026 1.793607034
11054 1.448264787
11082 -1.106241682
11110 -0.017453704
11130 1.930902972
13130 -0.100233929
11176 -0.30684724
17575 0.03027917
19580 1.263029066
10944 0.072572869
10974 -0.518387227
11000 -0.324422372
11030 1.601679435
11058 -0.043155715
11086 0.590614126

Total number of rows: 2244

Table truncated, full table size 40 Kbytes.




Supplementary file Size Download File type/resource
GSM2070604_Slide13768401_1192A_cy5_vs_1192B_cy3.gpr.gz 743.9 Kb (ftp)(http) GPR
Processed data included within Sample table
Processed data are available on Series record

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