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Sample GSM477880 Query DataSets for GSM477880
Status Public on Jan 09, 2010
Title Tiwari_2-8_2x-X-4x-5dap_Rep1_ATH1
Sample type RNA
 
Source name C24
Organism Arabidopsis thaliana
Characteristics tissue: siliques
developmental stage: 5 days after fertilization
genetic background: C24
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 Seeds stratified and planted in soil and let to grow till flowering. Crosses done at this stage 22C average, 22C day, 22C night 65% average, 65% day, 65% night.
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 Dec 02, 2009
Last update date Jan 08, 2010
Contact name Nottingham Arabidopsis Stock Centre (NASC)
E-mail(s) [email protected]
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)
GSE19259 Seed development

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 14898.056640625 P 0.000244141003349796
AFFX-r2-P1-cre-3_at 18162.05078125 P 0.000244141003349796
AFFX-r2-Ec-bioD-5_at 3989.93481445313 P 0.000244141003349796
AFFX-r2-Ec-bioD-3_at 4729.455078125 P 0.000244141003349796
AFFX-r2-Ec-bioC-5_at 1507.14416503906 P 0.000244141003349796
AFFX-r2-Ec-bioC-3_at 1879.14038085938 P 0.000244141003349796
AFFX-r2-Ec-bioB-M_at 476.238189697266 P 0.000244141003349796
AFFX-r2-Ec-bioB-5_at 443.067169189453 P 0.000244141003349796
AFFX-r2-Ec-bioB-3_at 359.302795410156 P 0.000244141003349796
AFFX-r2-Bs-thr-M_s_at 9.0472240447998 A 0.665526986122131
AFFX-r2-Bs-thr-5_s_at 21.669261932373 M 0.0561522990465164
AFFX-r2-Bs-thr-3_s_at 6.2922625541687 A 0.696289002895355
AFFX-r2-Bs-phe-M_at 2.00207924842834 A 0.850341975688934
AFFX-r2-Bs-phe-5_at 0.689877152442932 A 0.974853515625
AFFX-r2-Bs-phe-3_at 15.3133172988892 A 0.24609400331974
AFFX-r2-Bs-lys-M_at 1.25209939479828 A 0.92919921875
AFFX-r2-Bs-lys-5_at 7.88742542266846 A 0.533936023712158
AFFX-r2-Bs-lys-3_at 4.90558767318726 A 0.432372987270355
AFFX-r2-Bs-dap-M_at 0.699327111244202 A 0.969726979732513
AFFX-r2-Bs-dap-5_at 12.6509122848511 A 0.567627012729645

Total number of rows: 22810

Table truncated, full table size 1065 Kbytes.




Supplementary file Size Download File type/resource
GSM477880.CEL.gz 1.8 Mb (ftp)(http) CEL
Processed data included within Sample table
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