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Sample GSM527044 Query DataSets for GSM527044
Status Public on Oct 22, 2021
Title only LPS (4μg/ml) treatment biol rep 2 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 1093 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
VALUE Rosetta software computed normalized signal intensity

Data table
PH_hs_0000002 1111.88611
PH_hs_0000003 32.1234589
PH_hs_0000004 104.660301
PH_hs_0000005 -3.10872173
PH_hs_0000006 50157.1523
PH_hs_0000007 2846.55298
PH_hs_0000008 436.257294
PH_hs_0000009 677.701355
PH_hs_0000010 22223.2148
PH_hs_0000011 229.009171
PH_hs_0000012 7044.36328
PH_hs_0000013 574.077271
PH_hs_0000014 661.12146
PH_hs_0000015 139.892471
PH_hs_0000016 58.0294724
PH_hs_0000017 32.1234589
PH_hs_0000018 40.4133835
PH_hs_0000019 21.7610512
PH_hs_0000020 5937.65869
PH_hs_0000021 159.581055

Total number of rows: 30968

Table truncated, full table size 751 Kbytes.

Supplementary file Size Download File type/resource
GSM527044_H44-0607008415.gpr.gz 2.7 Mb (ftp)(http) GPR
Processed data included within Sample table

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