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Sample GSM130791 Query DataSets for GSM130791
Status Public on Sep 08, 2006
Title PAO1_PCP_0hr
Sample type RNA
 
Source name Whole cells, pre-PCP exposure
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 First of four timepoints in experiment, Pre-pentachlorophenol exposure, 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 0.901983
AFFX-YEL018W_at 0 A 0.88284
AFFX-YEL024W_RIP1_at 0 A 0.998111
AFFX-YFL039C_ACT1_at 0.1 A 0.749276
AFFX-YER148W_SPT15_at 0 A 0.978134
AFFX-YER022W_SRB4_at 0 A 0.939581
AFFX-Athal_GAPDH_at 0 A 0.796017
AFFX-Athal_ubq_at 1.4 A 0.52062
AFFX-Athal_actin_at 0 A 0.956032
AFFX-Bsubtilis_dapB_at 0.7 A 0.621816
AFFX-Bsubtilis_lys_at 0.1 A 0.284747
AFFX-Bsubtilis_pheB_at 0 A 0.918663
AFFX-Bsubtilis_thrC_at 0.3 A 0.980696
AFFX-Bsubtilis_trpD_at 0.1 A 0.991311
Pae_flgK_at 2 A 0.513937
Pae_flgL_at 1.6 A 0.844552
Pae_orfA_vioA_at 1.9 A 0.649648
Pae_orfB_at 11.6 A 0.191176
Pae_orfC_at 12 A 0.430652
Pae_orfD_at 2.5 A 0.723753

Total number of rows: 5900

Table truncated, full table size 160 Kbytes.




Supplementary data files not provided

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