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Sample GSM1133204 Query DataSets for GSM1133204
Status Public on May 04, 2013
Title 4KO-loD3 rep1
Sample type RNA
 
Source name purified primary B cells from Irf4-inducible mice on the Irf4-/- background; stimulated for 3 Days; 16ng/mL DOX
Organism Mus musculus
Characteristics strain/background: C57BL/6, B1-8i
genotype: Irf4-/-
cell type: resting mature peripheral primary B cells
stimulation duration: Day3
treatment: low DOX
Treatment protocol CD40L + IL-2 + IL-4 + IL-5; some samples included 16 or 100ng/mL doxycycline as indicated.
Growth protocol RPMI medium + 10% FCS and supplements (Hepes, 2-Me, glutamine, NEAA, Na-Pyruvate, Pen/Strep); isolated primary cells stimulated as indicated at a density of 0.5million/mL.
Extracted molecule total RNA
Extraction protocol Trizol
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 250 ng total RNA.
 
Hybridization protocol Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C. on GeneChip Mouse Genome 430 2.0 Array. GeneChips were washed and stained, using an anti-biotin amplification step, in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 according to manufacturer's specifications.
Description Irf4-/-; Day3, low DOX, rep1
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings. The resulting data was then normalized and scaled using D-chip (PM-only) model.
 
Submission date May 02, 2013
Last update date May 04, 2013
Contact name Mark Maienschein-Cline
E-mail(s) mmaiensc@uic.edu
Organization name University of Illinois at Chicago
Department Research Resources Center
Lab Center for Research Informatics
Street address 1819 W Polk Ave, Rm 336 M/C 789
City Chicago
State/province IL
ZIP/Postal code 60612
Country USA
 
Platform ID GPL1261
Series (2)
GSE46606 Transcriptional regulation of germinal center B and plasma cell fates by dynamical control of IRF4 (expression)
GSE46608 Transcriptional regulation of germinal center B and plasma cell fates by dynamical control of IRF4

Data table header descriptions
ID_REF
VALUE dChip signal intensity
CALL
SE

Data table
ID_REF VALUE CALL SE
AFFX-BioB-5_at 308.15 P 6.5
AFFX-BioB-M_at 404.54 P 9.15
AFFX-BioB-3_at 350.2 P 5.75
AFFX-BioC-5_at 667.42 P 7.25
AFFX-BioC-3_at 1095.31 P 14.96
AFFX-BioDn-5_at 2459.63 P 21.27
AFFX-BioDn-3_at 3311.69 P 44.7
AFFX-CreX-5_at 10230.71 P 77.57
AFFX-CreX-3_at 11215.21 P 100.3
AFFX-DapX-5_at 822.39 P 13.71
AFFX-DapX-M_at 1734.17 P 24.6
AFFX-DapX-3_at 2483.56 P 27.14
AFFX-LysX-5_at 144.65 P 5.84
AFFX-LysX-M_at 288.91 P 5.96
AFFX-LysX-3_at 540.18 P 8.31
AFFX-PheX-5_at 270.71 P 6.77
AFFX-PheX-M_at 364.88 P 6.37
AFFX-PheX-3_at 355.55 P 7.25
AFFX-ThrX-5_at 246.97 P 6.95
AFFX-ThrX-M_at 320.61 P 7.72

Total number of rows: 45101

Table truncated, full table size 1119 Kbytes.




Supplementary file Size Download File type/resource
GSM1133204_B2-4KOAloD3.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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