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Sample GSM130792 Query DataSets for GSM130792
Status Public on Sep 08, 2006
Title PAO1_PCP_6.5hr
Sample type RNA
 
Source name Whole cells
Organism Pseudomonas aeruginosa
Characteristics Strain PAO1
Biomaterial provider E.P. Greenberg, University of Washington
Treatment protocol Treated with RNA Bacterial Protect Reagent (Qiagen, Valencia, CA)
Growth protocol Cells were grown in a chemostat at a 12 hour generation time in a minimal medium that contained acetate as the sole carbon source.
Extracted molecule total RNA
Extraction protocol RNeasy Mini Kit from Qiagen, with on-column DNase-digestion as described by the manufacturer.
Label Biotin
Label protocol As described by Affymetrix
 
Hybridization protocol As described by Affymetrix
Scan protocol As described by Affymetrix
Description Second of four timepoints in experiment, pentachlorophenol concentration 15 mg/L, replicate 1 of 2
Data processing GCOS 1.1.1, using default parameters and scaled to 100 average intensity over entire genechip
 
Submission date Aug 25, 2006
Last update date Aug 28, 2006
Contact name Nancy G. Love
E-mail(s) nlove@vt.edu
Phone 540-231-3980
Fax 540-231-7916
Organization name Virginia Tech
Department Civil and Environmental Engineering
Lab CEE Environmental Bionanotechnology Lab
Street address 418 Durham Hall
City Blacksburg
State/province VA
ZIP/Postal code 24061
Country USA
 
Platform ID GPL84
Series (1)
GSE5604 PCP shock of P. aeruginosa

Data table header descriptions
ID_REF
VALUE average signal value after chip scaled to 100
ABS_CALL Affymetrix presence/absence detection call for gene
DETECTION P-VALUE p-value associated with detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-YEL002C_WPB1_at 0 A 0.458816
AFFX-YEL018W_at 0 A 0.697453
AFFX-YEL024W_RIP1_at 0 A 0.975289
AFFX-YFL039C_ACT1_at 0 A 0.250724
AFFX-YER148W_SPT15_at 0 A 0.397994
AFFX-YER022W_SRB4_at 0 A 0.975289
AFFX-Athal_GAPDH_at 0 A 0.479367
AFFX-Athal_ubq_at 0.1 A 0.697453
AFFX-Athal_actin_at 0 A 0.765443
AFFX-Bsubtilis_dapB_at 0.1 A 0.47938
AFFX-Bsubtilis_lys_at 0 A 0.066865
AFFX-Bsubtilis_pheB_at 0 A 0.697453
AFFX-Bsubtilis_thrC_at 0.1 A 0.67917
AFFX-Bsubtilis_trpD_at 0 A 0.837065
Pae_flgK_at 12.5 A 0.139354
Pae_flgL_at 3.3 A 0.649648
Pae_orfA_vioA_at 4.6 A 0.458256
Pae_orfB_at 1.9 A 0.430652
Pae_orfC_at 3.9 A 0.675178
Pae_orfD_at 4.3 A 0.541744

Total number of rows: 5900

Table truncated, full table size 161 Kbytes.




Supplementary data files not provided

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