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Sample GSM228434 Query DataSets for GSM228434
Status Public on Dec 01, 2007
Title C57Bl/6 AM 4hrs post e6 conidia, biological rep3
Sample type RNA
 
Source name Alveolar Macrophage (AM) and control untreated
Organism Mus musculus
Characteristics AM collected from C57Bl/6, 4 hour after exposure to Aspergillus fumigatus conidia
Treatment protocol Sample AM collected 4 hours after in vivo incubation with conidia
Extracted molecule total RNA
Extraction protocol RNeasy RNA extraction kit (Quiagen) was performed on AM harvested fresh according to the manufacturer's instructions from mouse lungs.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard two-cycle Affymetrix protocol from 100 nanograms total RNA (Expression Analysis Technical Manual, 2004, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 micrograms of cRNA were hybridized for 16 hr_at 45C on GeneChip Mouse GeneChip 430A 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GCOS Scanner 3000.
Description Gene expression timecourse from AM following in vivo exposure to A. fumigatus conidia.
Data processing Data was analyzed with Agilent Genespring GX v. 7.3.1 using Affymetrix GCOS generated flag data from scaled CHP files, and RMA-normalized CEL files.
 
Submission date Sep 10, 2007
Last update date Aug 14, 2011
Contact name Kate McInnerney
E-mail(s) kmcinnerney@montana.edu
Phone 406-994-5666
Fax 406-994-4926
URL http://cores.montana.edu
Organization name Montana State University
Department Microbiology
Lab Functional Genomics Facility
Street address 109 Lewis Hall
City Bozeman
State/province MT
ZIP/Postal code 59717
Country USA
 
Platform ID GPL8321
Series (1)
GSE8997 XX hour expression data of AM from C57Bl/6 or gp91phox-/- mice following exposure to conidia or polystyrene beads

Data table header descriptions
ID_REF
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 255.522 P 0.000662269
AFFX-BioB-M_at 398.744 P 5.16732e-05
AFFX-BioB-3_at 230.99 P 8.14279e-05
AFFX-BioC-5_at 845.535 P 5.16732e-05
AFFX-BioC-3_at 1021.01 P 4.42873e-05
AFFX-BioDn-5_at 1740.07 P 4.42873e-05
AFFX-BioDn-3_at 3004.08 P 4.42873e-05
AFFX-CreX-5_at 10013.4 P 5.16732e-05
AFFX-CreX-3_at 10362 P 4.42873e-05
AFFX-DapX-5_at 81.7146 P 0.000146581
AFFX-DapX-M_at 596.627 P 0.000169227
AFFX-DapX-3_at 2412.44 P 4.42873e-05
AFFX-LysX-5_at 28.8753 P 0.0012475
AFFX-LysX-M_at 146.432 P 0.000753643
AFFX-LysX-3_at 566.11 P 9.4506e-05
AFFX-PheX-5_at 31.8145 P 0.0182806
AFFX-PheX-M_at 139.351 P 7.00668e-05
AFFX-PheX-3_at 289.972 P 6.02111e-05
AFFX-ThrX-5_at 49.4908 P 0.0464816
AFFX-ThrX-M_at 167.907 P 0.000296708

Total number of rows: 22690

Table truncated, full table size 705 Kbytes.




Supplementary file Size Download File type/resource
GSM228434.CEL.gz 2.1 Mb (ftp)(http) CEL
GSM228434.CHP.gz 123.3 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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