NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM85638 Query DataSets for GSM85638
Status Public on Dec 01, 2005
Title cold treated, 3 h, replicate 2
Sample type RNA
 
Source name suspension cell culture, chloramphenicol 3 h
Organism Arabidopsis thaliana
Characteristics Arabidopsis suspension cell culture, cv Lansberg erecta, 4 days post sub-culturing, sample collected 3 h post-treatment with treatment starting 2 h into the light cycle of a 16 h light 8 h dark light cycle
Biomaterial provider Plant Molecular Biology Group: Rachel Clifton, Ryan Lister, Pia Sappl
Treatment protocol 250 mL flasks of suspension cells were cold (10°C) treated, samples were collected 3 h after treatment.
Extracted molecule total RNA
Label biotin
Label protocol Approximately 5 µg of total RNA was processed to produce biotinylated cRNA targets.
 
Hybridization protocol standard Affymetrix procedures
Scan protocol standard Affymetrix procedures
Description Wild type Arabidopsis suspension cell culture, pale green in colour
Data processing Affymetrix Microarray Suite version 5.0
 
Submission date Dec 01, 2005
Last update date Dec 01, 2005
Contact name Rachel Clifton
E-mail(s) [email protected]
Organization name Plant Energy Biology, ARC Centre of Excellence
Department Biochemistry, UWA
Lab Plant Molecular Biology Group
Street address 4th Floor CMS Building M310, University of Western Australia
City Crawley
State/province Western Australia
ZIP/Postal code 6009
Country Australia
 
Platform ID GPL198
Series (1)
GSE3709 Cell culture treatment study

Data table header descriptions
ID_REF
VALUE MAS5-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)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 314.8 P 0.000446
AFFX-BioB-M_at 341.4 P 0.000052
AFFX-BioB-3_at 291.8 P 0.00039
AFFX-BioC-5_at 641.5 P 0.000052
AFFX-BioC-3_at 476.6 P 0.000127
AFFX-BioDn-5_at 786 P 0.000195
AFFX-BioDn-3_at 3328.4 P 0.000052
AFFX-CreX-5_at 5588.5 P 0.000044
AFFX-CreX-3_at 8976.4 P 0.000052
AFFX-DapX-5_at 379.9 P 0.00007
AFFX-DapX-M_at 724.4 P 0.000052
AFFX-DapX-3_at 1186.5 P 0.000044
AFFX-LysX-5_at 62.8 P 0.001796
AFFX-LysX-M_at 93.9 P 0.001102
AFFX-LysX-3_at 106.8 P 0.000081
AFFX-PheX-5_at 99.7 P 0.000258
AFFX-PheX-M_at 108.1 P 0.002867
AFFX-PheX-3_at 193.3 P 0.000127
AFFX-ThrX-5_at 125 P 0.013811
AFFX-ThrX-M_at 163.8 P 0.000052

Total number of rows: 22810

Table truncated, full table size 586 Kbytes.




Supplementary data files not provided

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