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Sample GSM631429 Query DataSets for GSM631429
Status Public on Jan 03, 2011
Title BMDM stimulated with cmB16F1, rep3
Sample type RNA
Source name BMDM stimulated with cmB16F1
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: bone marrow cells after a total of 7 days cultivation in vitro
stimulation: cmB16
Treatment protocol At day 4 the culture medium was replaced by stimulation medium as indicated and cells were cultured for 3 more days.
Growth protocol Bone marrow cells were isolated from the tibias and femurs of C57BL/6 mice. M-CSF at a concentration of 30 ng/ml was added to the culture medium [DMEM, 10% FCS, and penicillin/streptomycin].
Extracted molecule total RNA
Extraction protocol Total RNA extraction was carried out with a RNeasy RNA-extraction Kit (Qiagen) according to the manufacturers protocols
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Hybridization protocol Hybridization (16h x 45°C) was processed according to the standard Affymetrix protocol.
Scan protocol Affymetrix GeneArray Scanner3000
Description mouse bone marrow cells after a total of 7 days cultivation in vitro stimulated with cmB16F1, rep3
Data processing The data were analyzed with a commercial software called JMP Genomics, version 3.2, from SAS. A custom CDF (Mouse4302_Mm_UG, Brainarray Version 9) was used to annotate the arrays. The Raw fluorescence intensity values were normalized applying quantile normalization.
Submission date Nov 30, 2010
Last update date Jan 03, 2011
Contact name Carsten Sticht
Organization name University Heidelberg
Department ZMF
Street address Theodor-Kutzer-Ufer
City Mannheim
ZIP/Postal code 68169
Country Germany
Platform ID GPL6526
Series (1)
GSE25707 Synergistic activation by p38MAPK and glucocorticoid signaling mediates induction of M2-like tumor-associated macrophages expressing the novel CD20 homolog MS4A8A

Data table header descriptions
VALUE RMA signal intensity

Data table
AFFX-18SRNAMur/X00686_3_at 10.0820734
AFFX-18SRNAMur/X00686_5_at 8.68888558
AFFX-18SRNAMur/X00686_M_at 9.38548246
AFFX-b-ActinMur/M12481_3_at 13.9271308
AFFX-b-ActinMur/M12481_5_at 12.9093357
AFFX-b-ActinMur/M12481_M_at 13.0726478
AFFX-BioB-3_at 8.35530493
AFFX-BioB-5_at 7.99372703
AFFX-BioB-M_at 8.50131178
AFFX-BioC-3_at 9.51954664
AFFX-BioC-5_at 9.27500703
AFFX-BioDn-3_at 11.3112513
AFFX-BioDn-5_at 10.1588967
AFFX-CreX-3_at 12.6944058
AFFX-CreX-5_at 12.4032912
AFFX-DapX-3_at 6.49061551
AFFX-DapX-5_at 6.27980631
AFFX-DapX-M_at 6.44976666
AFFX-GapdhMur/M32599_3_at 13.0938559
AFFX-GapdhMur/M32599_5_at 12.595517

Total number of rows: 17931

Table truncated, full table size 410 Kbytes.

Supplementary file Size Download File type/resource
GSM631429.CEL.gz 6.0 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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