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Sample GSM507040 Query DataSets for GSM507040
Status Public on Apr 20, 2010
Title 2-4_Col-TF1_Rep2_ATH1
Sample type RNA
 
Source name SAIL_1168_C11
Organism Arabidopsis thaliana
Characteristics genetic background: Col-0
developmental stage: 6.00
tissue: mature pollen
stock code: SAIL_1168_C11
Growth protocol Plants were grown in compost in a growth room as described (Honys and Twell, Plant Physiology 132: 640-652, 2003).
Extracted molecule total RNA
Extraction protocol Qiagen RNAeasy kit protocol
Label biotin
Label protocol Labelled using protocol described in manual "Affymetrix GeneChip Expression Analysis Technical Manual", One-Cycle target labelling
 
Hybridization protocol Biotin Labelled cRNA using "Affymetrix GeneChip Hybridization, Wash and Stain Kit", according to guidelines set out by Affymetrix, Santa Clara, CA
Scan protocol Scanned according to guidelines set out by Affymetrix, Santa Clara, CA.
Description Growth Room, Natural soil, 21oC, 75% humidity.
Data processing Raw data from the microarrays was normalized at probe-level using MAS5 algorithm. The detection calls (present, marginal, absent) for each probe set was obtained using the GCOS system
 
Submission date Feb 08, 2010
Last update date Apr 19, 2010
Contact name Nottingham Arabidopsis Stock Centre (NASC)
E-mail(s) affy@arabidopsis.info
Phone +44 (0)115 951 3237
Fax +44 (0)115 951 3297
URL http://arabidopsis.info/
Organization name Nottingham Arabidopsis Stock Centre (NASC)
Department School of Biosciences, University of Nottingham
Street address Sutton Bonington Campus
City Loughborough
ZIP/Postal code LE12 5RD
Country United Kingdom
 
Platform ID GPL198
Series (1)
GSE20224 Gametophytic transcription factors

Data table header descriptions
ID_REF
VALUE MAS5.0-calculated signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), or marginal (M)
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-r2-P1-cre-5_at 20396.361328125 P 0.000244141003349796
AFFX-r2-P1-cre-3_at 17348.927734375 P 0.000244141003349796
AFFX-r2-Ec-bioD-5_at 3515.35229492188 P 0.000244141003349796
AFFX-r2-Ec-bioD-3_at 4546.2685546875 P 0.000244141003349796
AFFX-r2-Ec-bioC-5_at 981.940002441406 P 0.000244141003349796
AFFX-r2-Ec-bioC-3_at 1613.8271484375 P 0.000244141003349796
AFFX-r2-Ec-bioB-M_at 459.785430908203 P 0.000244141003349796
AFFX-r2-Ec-bioB-5_at 371.814483642578 P 0.000244141003349796
AFFX-r2-Ec-bioB-3_at 320.393218994141 P 0.000244141003349796
AFFX-r2-Bs-thr-M_s_at 20.1169624328613 A 0.753906011581421
AFFX-r2-Bs-thr-5_s_at 2.75016665458679 A 0.953857004642487
AFFX-r2-Bs-thr-3_s_at 3.32048392295837 A 0.951416015625
AFFX-r2-Bs-phe-M_at 26.9254970550537 A 0.219482004642487
AFFX-r2-Bs-phe-5_at 1.27967441082001 A 0.888427972793579
AFFX-r2-Bs-phe-3_at 27.7276649475098 A 0.5
AFFX-r2-Bs-lys-M_at 6.32219505310059 A 0.725830018520355
AFFX-r2-Bs-lys-5_at 3.24586343765259 A 0.828612983226776
AFFX-r2-Bs-lys-3_at 1.45256233215332 A 0.665526986122131
AFFX-r2-Bs-dap-M_at 3.00814437866211 A 0.850341975688934
AFFX-r2-Bs-dap-5_at 7.22960138320923 A 0.850341975688934

Total number of rows: 22810

Table truncated, full table size 1042 Kbytes.




Supplementary file Size Download File type/resource
GSM507040.CEL.gz 1.6 Mb (ftp)(http) CEL
Processed data included within Sample table
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