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Sample GSM117563 Query DataSets for GSM117563
Status Public on Jun 30, 2006
Title macrophages at 4 h post infection with B. melitensis strain 16M, biological rep1
Sample type RNA
Source name murine macrophage J774.A1 cell line, from ATCC (#TIB-67)
Organism Mus musculus
Characteristics infected with Brucella melitensis strain 16M for 4 hours
Treatment protocol J774.A1 macrophages were infected with B. melitensis strain 16M
Growth protocol J774.A1 macrophage cells were plated in 12 75-cm^2 flasks in c-DMEM without antibiotics 1 day prior to infection at a concentration of 8 x 10^6 cells per flask. Following 4h incubation at 37°C in an atmosphere containing 5% CO2, the cells were washed three times with PBS, and treated with TRIzol and Qiagen kit for RNA preparation.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed, followed by Qiagen RNeasy Mini Kit cleanup according to the manufacturers' instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
Hybridization protocol Following fragmentation, cRNA were hybridized on GeneChip mouse 430 2.0 arrays according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
Description Gene expression data from mouse J774.A1 macrophages infected with B. melitensis strain 16M for 4 hours.
Data processing The data were analyzed with GCOS using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 250.
Submission date Jun 30, 2006
Last update date Aug 02, 2019
Contact name Yongqun He
Phone 734-615-8231
Fax 734-936-3235
Organization name University of Michigan
Street address 018 ARF, 1150 W. Medical Center Dr.
City Ann Arbor
State/province MI
ZIP/Postal code 48109
Country USA
Platform ID GPL1261
Series (1)
GSE5202 Expression data from B. melitensis infected mouse macrophages
Reanalyzed by GSE119085
Reanalyzed by GSE135324

Data table header descriptions
VALUE GCOS-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)

Data table
AFFX-BioB-5_at 275.8 P
AFFX-BioB-M_at 611.2 P
AFFX-BioB-3_at 235.5 P
AFFX-BioC-5_at 883.6 P
AFFX-BioC-3_at 727.1 P
AFFX-BioDn-5_at 834.4 P
AFFX-BioDn-3_at 3943.7 P
AFFX-CreX-5_at 11291.3 P
AFFX-CreX-3_at 14117.6 P
AFFX-DapX-5_at 22.6 A
AFFX-DapX-M_at 57.5 A
AFFX-DapX-3_at 10.2 A
AFFX-LysX-5_at 21.7 A
AFFX-LysX-M_at 9.7 A
AFFX-LysX-3_at 26.8 A
AFFX-PheX-5_at 12.7 A
AFFX-PheX-M_at 1.9 A
AFFX-PheX-3_at 23 A
AFFX-ThrX-5_at 9 A
AFFX-ThrX-M_at 17 A

Total number of rows: 45101

Table truncated, full table size 818 Kbytes.

Supplementary file Size Download File type/resource
GSM117563.CEL.gz 3.4 Mb (ftp)(http) CEL
Raw data provided as supplementary file

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