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Sample GSM648527 Query DataSets for GSM648527
Status Public on Nov 21, 2011
Title S1 vs. S2 (H01)
Sample type RNA
 
Channel 1
Source name S1: HEK293 cells transfected with Poly(I:C) for 16hours
Organism Homo sapiens
Characteristics cell line: HEK293 cells
treatment: poly(I:C) transfection for 16 hours
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions. RNA purity was checked by optical density of NanoDrop ND-1000 and agarose electrophoresis. RNA integrity was measured by Agilent RNA 6000 Nano Assay (RIN≧7).
Label Cy5
Label protocol 2.5 µg of total RNA was reverse-transcribed and amplified using MessageAmpTM aRNA Amplification Kit (Ambion). Indirect labeling the aa-UTP whereon by NHS-CyDye (Cy5, Cy3; Amershan).
 
Channel 2
Source name S2: HEK293 control
Organism Homo sapiens
Characteristics cell line: HEK293 cells
treatment: control
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions. RNA purity was checked by optical density of NanoDrop ND-1000 and agarose electrophoresis. RNA integrity was measured by Agilent RNA 6000 Nano Assay (RIN≧7).
Label Cy3
Label protocol 2.5 µg of total RNA was reverse-transcribed and amplified using MessageAmpTM aRNA Amplification Kit (Ambion). Indirect labeling the aa-UTP whereon by NHS-CyDye (Cy5, Cy3; Amershan).
 
 
Hybridization protocol HOA v4.3 arrays were pre-heat at 60℃ for 10 mins, rehydrated by 100% ethanol following with deionized water. The slides were pre-hybridized with 5x SSPE, 0.1% SDS and 1% BSA at 42℃ for 2 hour. After the pre-hybridization, 5 µg Cy5-labeled aRNA was hybridize on HOA in the presentation of the Phalanx OneArray hybridization buffer.
Scan protocol The arrays were scanned by Axon GenePix 4000B scanner (635nm power 100 PMT 600~630 ; 532nm power 10, PMT 460) and quantify the fluoresence intensity.
Description log2(S1/S2)
Data processing The raw data were adjust by Rosetta Resolver® error model calculation. The statistic values were calculated after the replicated probes squeezing and median scaling normalization.
 
Submission date Jan 04, 2011
Last update date Nov 21, 2011
Contact name Zhengfan Jiang
E-mail(s) jiangzf@pku.edu.cn
Organization name Peking University
Department School of Life Sciences
Street address No.5 Yiheyuan Road, Haidian District
City Beijing
ZIP/Postal code 100871
Country China
 
Platform ID GPL6254
Series (1)
GSE26435 Activation of STAT6 by STING Is Critical for Antiviral Innate Immunity

Data table header descriptions
ID_REF
VALUE Rosetta software-computed, normalized, log2 (Cy5/Cy3) ratio

Data table
ID_REF VALUE
PH_hs_0000002 -0.307752292
PH_hs_0000003
PH_hs_0000004 0.348357108
PH_hs_0000005
PH_hs_0000006 -0.422577134
PH_hs_0000007 -0.05393093
PH_hs_0000008 -0.153314689
PH_hs_0000009 0.591662229
PH_hs_0000010 0.050457306
PH_hs_0000011 -0.143933086
PH_hs_0000012 -0.166573767
PH_hs_0000013 0.294554373
PH_hs_0000014 -0.301452877
PH_hs_0000015
PH_hs_0000016
PH_hs_0000017
PH_hs_0000018 -0.199200463
PH_hs_0000019 0.002125197
PH_hs_0000020 -0.288065248
PH_hs_0000021 0.107768597

Total number of rows: 30968

Table truncated, full table size 629 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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