NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM117562 Query DataSets for GSM117562
Status Public on Jun 30, 2006
Title macrophages at 0h post infection with B. melitensis strain 16M, biological rep3
Sample type RNA
 
Source name murine macrophage J774.A1 cell line, from ATCC (#TIB-67)
Organism Mus musculus
Characteristics uninfected control
Treatment protocol J774.A1 macrophages were treated with DMEM complete medium.
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.
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 uninfected mouse J774.A1 macrophages.
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
E-mail(s) yongqunh@umich.edu
Phone 734-615-8231
Fax 734-936-3235
URL http://www.hegroup.org/
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
Relations
Reanalyzed by GSE119085
Reanalyzed by GSE135324

Data table header descriptions
ID_REF
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
ID_REF VALUE ABS_CALL
AFFX-BioB-5_at 390.4 P
AFFX-BioB-M_at 757 P
AFFX-BioB-3_at 418.6 P
AFFX-BioC-5_at 1053 P
AFFX-BioC-3_at 1065.6 P
AFFX-BioDn-5_at 1079.3 P
AFFX-BioDn-3_at 4547.4 P
AFFX-CreX-5_at 13606.2 P
AFFX-CreX-3_at 16540.5 P
AFFX-DapX-5_at 21.8 A
AFFX-DapX-M_at 31.1 A
AFFX-DapX-3_at 26 A
AFFX-LysX-5_at 3.3 A
AFFX-LysX-M_at 16.9 A
AFFX-LysX-3_at 14.1 A
AFFX-PheX-5_at 5.5 A
AFFX-PheX-M_at 2.1 A
AFFX-PheX-3_at 5.4 A
AFFX-ThrX-5_at 11.9 A
AFFX-ThrX-M_at 27.1 A

Total number of rows: 45101

Table truncated, full table size 815 Kbytes.




Supplementary file Size Download File type/resource
GSM117562.CEL.gz 3.3 Mb (ftp)(http) CEL
Raw data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap