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Sample GSM527047 Query DataSets for GSM527047
Status Public on Oct 22, 2021
Title only LPS (4μg/ml) treatment biol rep 3 tech rep 2
Sample type RNA
 
Source name U937 cell line (human histiocytic lymphoma cell)
Organism Homo sapiens
Characteristics cell line: U937
treatment: only LPS (4μg/ml)
Treatment protocol Human macrophage cells were untreatment, LPS (4μg/ml) only, preteated PBD150 inhibitor (10μM) for 2 hrs before the addition LPS (4μg/ml) treatment, the incubation time of the culture was 48 hours.
Growth protocol The U937 cells were maintained at 2-3 × 106 cells/ml in a RPMI 1640 medium supplemented with 10% FBS, the incubation time of the culture was 48 hours.
Extracted molecule total RNA
Extraction protocol RNA extraction by column based extraction kit (RiboPure-Blood, Ambion). 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>8).
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, 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 Phalanx Biotech Group's Human OneArray contains 32,048 features, 30968 detection probes and 1096 control probes, spotted onto glass slides using a proprietary non-contact printing method.
Data processing The raw data were adjust by Rosetta Resolver® error model calculation. The statistic values were calculated after the replicated probes queezing and median scaling normalization.
 
Submission date Mar 26, 2010
Last update date Oct 22, 2021
Contact name Chen Yi Ling
Organization name Academia Sinica
Department Institute of Biological Chemistry
Lab 501
Street address 128 Academia Road, Section 2
City Taipei
ZIP/Postal code 11529
Country Taiwan
 
Platform ID GPL6254
Series (1)
GSE21082 Glutaminyl cyclase (QC) activity affects gene expression in macrophages during inflammation

Data table header descriptions
ID_REF
VALUE Rosetta software computed normalized signal intensity

Data table
ID_REF VALUE
PH_hs_0000002 1107.56592
PH_hs_0000003 19.7593918
PH_hs_0000004 134.155869
PH_hs_0000005 0
PH_hs_0000006 55013.2695
PH_hs_0000007 2722.63623
PH_hs_0000008 332.789764
PH_hs_0000009 748.776978
PH_hs_0000010 20745.2812
PH_hs_0000011 300.550751
PH_hs_0000012 9320.19336
PH_hs_0000013 672.859314
PH_hs_0000014 483.585114
PH_hs_0000015 122.716225
PH_hs_0000016 87.3573151
PH_hs_0000017 32.2390099
PH_hs_0000018 36.39888
PH_hs_0000019 9.3597126
PH_hs_0000020 6540.35889
PH_hs_0000021 139.355713

Total number of rows: 30968

Table truncated, full table size 750 Kbytes.




Supplementary file Size Download File type/resource
GSM527047_H47-0607008420.gpr.gz 2.7 Mb (ftp)(http) GPR
Processed data included within Sample table

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