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Sample GSM1149304 Query DataSets for GSM1149304
Status Public on Mar 30, 2014
Title Ctrl macrophages biological replicate 3
Sample type RNA
 
Source name IL6ralpha flox/flox mouse
Organism Mus musculus
Characteristics tissue: bone marrow
cell type: macrophage
genotype/variation: Ctrl
agent: IL-6
Treatment protocol Bone marrow-derived macrophages were serum-starved overnight and subsequently treated with 50ng/ml rec. murine IL-6 for 4 hours
Growth protocol primary murine bone marrow cells were differentiated into macophages in the presence of 10ng/ml rec. murine M-CSF for 10 days
Extracted molecule total RNA
Extraction protocol total RNA was isolated from cells using the Qiagen RNeasy Kit (Qiagen); Quality of RNA was assessed using the ExperionTM RNA StdSens Analysis Kit (BIO-RAD)
Label biotin
Label protocol Biotin-labeled cDNA was synthesized using GeneChip Whole Transcript Sense Target Labeling Assay (Affymetrix)
 
Hybridization protocol cDNAs were hybridized for 17 h at 45°C to GeneChip Mouse Gene 1.0 ST Arrays (Affymetrix)
Scan protocol Arrays were washed and stained in the GeneChip Fluidics Station 450 (Affymetrix) and scanned on a GeneChip Scanner 3000 7G (Affymetrix)
Description IL-6 treated bone marrow-derived macrophages from Ctrl animals biological replicate 3
Ctrl_3
Data processing Affymetrix Powertools and robust multi-array average (RMA) were used for background correction, quantile normalization and summarization of the raw intensity values. RMA, statistical analyses (Student’s t-test), calculation of the fold change of intensity values and graphical illustrations were performed using R software (version 2.13.1) along with the Bioconductor software package. Genes were considered significantly deregulated if p-values ≤ 0.05.
probe group file: MoGene-1_0-st-v1.r4.pgf
meta-probeset file: MoGene-1_0-st-v1.r4.mps
 
Submission date May 28, 2013
Last update date Mar 30, 2014
Contact name Jan Mauer
E-mail(s) [email protected]
Organization name BioMed X Innovation Center
Street address Im Neuenheimer Feld, 583
City Heidelberg
State/province BW
ZIP/Postal code 69120
Country Germany
 
Platform ID GPL6246
Series (1)
GSE47426 Expression Data from murine control and IL6ralpha-deficient macrophages stimulated with Interleukin-6

Data table header descriptions
ID_REF
VALUE Quantile normalized gene level expression values (RMA) fom BioConductor (affy)

Data table
ID_REF VALUE
10338001 12.92241
10338002 5.52356
10338003 11.07684
10338004 10.22511
10338005 2.64454
10338006 2.77729
10338007 3.00661
10338008 3.55977
10338009 6.66903
10338010 2.63154
10338011 5.20743
10338012 2.71516
10338013 2.5523
10338014 2.55418
10338015 2.52722
10338016 6.30933
10338017 13.69338
10338018 5.90895
10338019 4.73136
10338020 6.94789

Total number of rows: 35556

Table truncated, full table size 588 Kbytes.




Supplementary file Size Download File type/resource
GSM1149304_Ctrl_IL6_3.CEL.gz 4.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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