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Sample GSM527055 Query DataSets for GSM527055
Status Public on Oct 22, 2021
Title Preteated PBD150 inhibitor before the addition LPS (4μg/ml) treatment biol rep 3 tech rep 1
Sample type RNA
 
Source name U937 cell line (human histiocytic lymphoma cell)
Organism Homo sapiens
Characteristics cell line: U937
treatment: Preteated PBD150 inhibitor before the addition 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 1104 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 1404.98694
PH_hs_0000003 23.4615669
PH_hs_0000004 205.739899
PH_hs_0000005 8.12131119
PH_hs_0000006 46196.7266
PH_hs_0000007 2378.64185
PH_hs_0000008 228.299088
PH_hs_0000009 1527.70898
PH_hs_0000010 15588.4062
PH_hs_0000011 142.574142
PH_hs_0000012 8597.76172
PH_hs_0000013 559.46814
PH_hs_0000014 468.328979
PH_hs_0000015 89.3344269
PH_hs_0000016 111.893623
PH_hs_0000017 12.6331511
PH_hs_0000018 178.668854
PH_hs_0000019 -1.8047359
PH_hs_0000020 6886.87207
PH_hs_0000021 111.893623

Total number of rows: 30968

Table truncated, full table size 752 Kbytes.




Supplementary file Size Download File type/resource
GSM527055_H55-0607008651.gpr.gz 2.7 Mb (ftp)(http) GPR
Processed data included within Sample table

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