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Sample GSM260690 Query DataSets for GSM260690
Status Public on Jan 29, 2009
Title Dendritic cells after LPS treatment, time point 4hours
Sample type RNA
 
Source name monocyte-derived dendritic cells 4 hours after stimulation with LPS
Organism Homo sapiens
Characteristics healthy donor
Treatment protocol Day 5-immature DC were seeded on 24-well plates at 1×106 cells/ml with GM-CSF and IL-4. DC maturation was induced by addition of either a cocktail of pro-inflammatory cytokines and prostaglandins including TNF-alpha (10 ng/ml), IL-1-beta (10 ng/ml), IL-6 (1000 U/ml) and PGE2 (1 µg/ml), LPS (1 µg/ml), Poly(I:C) (50 µg/ml) or flagged CD40L (500 ng/ml) + anti-Flag mAb (1 µg/ml) for 4, 8 and 16 hours.
Growth protocol Immature DC were generated from Buffy coats of healthy donors obtained from the German Red Cross after informed consent. Peripheral blood mononuclear cells (PBMC) were separated by Ficoll-Paque gradient centrifugation and DC were generated from purified CD14+ cells by using antibody-coated microbeads and magnetic separation . Selected CD14+ cells were cultured for 5 days at a concentration of 2×106/ml in the presence of GM-CSF (500 U/ml) and IL-4 (100 U/ml) (both purchased from Strahtmann Biotec, Hamburg, Germany).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from frozen cell pellets using the High Pure RNA Isolation kit according to the manufacturer’s (Roche) protocol.
Label biotin
Label protocol Total RNA was amplified and labelled using Message AmpII-Biotin enhanced Kit, Ambion
 
Hybridization protocol Following fragmentation, 12 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 using the EukGE-WS_v5_450 protocol
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description Gene expression data from monocyte-derived dendritic cells 4 hours after stimulation with LPS
Data processing The data were analyzed with GeneChip Operating Software version 1.4.0.036 (MAS 5.0) using Affymetrix default analysis settings. Normalization was performed by GCRMA.
 
Submission date Jan 29, 2008
Last update date Aug 28, 2018
Contact name Elke Krueger
Organization name Charité Universitaetsmedizin Berlin
Department Institute of Biochemistry
Street address Monbijoustr. 2
City Berlin
ZIP/Postal code 10117
Country Germany
 
Platform ID GPL570
Series (1)
GSE10316 Monocyte-derived dendritic cells stimulated with LPS, Poly(I:C), CD40L or a combination of IL-1-b, IL-6, TNF-a and PGE2
Relations
Reanalyzed by GSE49910
Reanalyzed by GSE86362
Reanalyzed by GSE119087

Data table header descriptions
ID_REF
VALUE GCRMA
ABS_CALL

Data table
ID_REF VALUE ABS_CALL
1007_s_at 4.468731613 A
1053_at 155.5548927 P
117_at 254.7819056 P
121_at 41.01482635 P
1255_g_at 29.80760315 P
1294_at 128.6260615 P
1316_at 7.711903835 P
1320_at 6.403439032 A
1405_i_at 28313.1713 P
1431_at 7.29245265 M
1438_at 3.793020069 A
1487_at 70.19479876 M
1494_f_at 7.082321251 M
1552256_a_at 148.3669943 P
1552257_a_at 40.22068001 P
1552258_at 22.10576465 M
1552261_at 5.865573117 A
1552263_at 398.9469092 P
1552264_a_at 563.6875062 P
1552266_at 7.605803932 A

Total number of rows: 54675

Table truncated, full table size 1318 Kbytes.




Supplementary file Size Download File type/resource
GSM260690.CEL.gz 4.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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