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Sample GSM1580657 Query DataSets for GSM1580657
Status Public on Jan 09, 2015
Title HuH7.rep3
Sample type RNA
 
Source name HuH7_control
Organism Homo sapiens
Characteristics cell line: HuH7
cell type: Human liver (hepato cellular carcinoma) cells
treated with: none (control)
time point: 3 days post-treatment
Treatment protocol HuH7 cells were treated with 10000 units/ml of IFN a2 and RNA was isolated 3 days post-treatment
Growth protocol HuH7 cells were incubated at 37 degress in 5% CO2 environment with DMEM media plus antibiotics and 10% FCS
Extracted molecule total RNA
Extraction protocol RNA was isolated with TRIZOL (SIGMA)
Label Cy3
Label protocol For future sample normalization, RNA was treated with One-Color RNA Spike-In Kit cat. # 5188-5282 (Agilent). 200ng of RNA were used for cDNA preparation with Low Input Quick Amp Labeling Kit, one-color Cat. # 5190-2305, Agilent®. Sample labelling with dye3 (cy3) fluorofor was made with previous cited kit. Labelled cDNA was purified with RNeasy MinElute Cleanup Kit Cat.# 74204 (Izasa/Qiagen).
 
Hybridization protocol Labelled cDNA was purified with RNeasy MinElute Cleanup Kit Cat.# 74204 (Izasa/Qiagen). Labeled cDNA was hybridized to SurePrint G3 Human GE 8x60 Agilent® Microarray chip (ID: G4858A-028004).using Gene Expression Hybridization Kit Cat. # 5188-5242).
Scan protocol Microarray Scanner Agilent G2505X class C
Description Huh7_889_2_3_10NG890
Data processing The data were normalized with Bioconductor software using quantiles.
 
Submission date Jan 08, 2015
Last update date Jan 09, 2015
Contact name Victor Segura
E-mail(s) vsegura@unav.es
Organization name FIMA
Department Unit of Proteomics, Genomics and Bioinformatics
Street address Avda. Pío XII, 55
City Pamplona
State/province Navarra
ZIP/Postal code 31008
Country Spain
 
Platform ID GPL13607
Series (2)
GSE64794 Type I interferon regulates the expression of long non-coding RNAs [expression array]
GSE64796 Type I interferon regulates the expression of long non-coding RNAs

Data table header descriptions
ID_REF
VALUE normalized log2 Cy3 signal

Data table
ID_REF VALUE
1 17.70839676
2 3.440607684
3 3.557007022
4 11.43853068
5 13.71634415
6 9.59269993
7 16.11569013
8 12.49610382
9 4.498027135
10 8.083474042
11 3.461120996
12 13.5655182
13 14.14415662
14 11.42921276
15 15.88022079
16 3.463401125
17 10.89720409
18 3.463136783
19 4.36192324
20 14.39469976

Total number of rows: 62976

Table truncated, full table size 1089 Kbytes.




Supplementary file Size Download File type/resource
GSM1580657_Huh7_889_2_3_10NG890.txt.gz 3.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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