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Sample GSM279165 Query DataSets for GSM279165
Status Public on May 15, 2008
Title Col-0_bud_totalRNA_F_1
Sample type RNA
 
Source name Immature floral tissue, unopened buds
Organism Arabidopsis thaliana
Characteristics Columbia-0
Treatment protocol no treatment
Growth protocol All plants were grown in potting soil (Metro Mix 250; Grace-Sierra, Boca Raton, FL) at 23ûC under a 16-hour light/8-hour dark cycle.
Extracted molecule total RNA
Extraction protocol total RNA was isolated from immature floral tissue following instructions from the manufacturer (Qiagen, RNeasy Plant Mini Kit).
Label biotin
Label protocol Fifteen micrograms of total RNA was used to synthesize double-stranded cDNA using the GeneChip One-Cycle cDNA Synthesis Kit (Affymetrix). Biotin-labeled cRNA was generated by in vitro transcription using the GeneChip IVT Labeling Kit (Affymetrix).
 
Hybridization protocol The Arabidopsis Tiling 1.0F whole genome tiling array was hybridized for 16 h, washed and stained with a streptavidin-phycoerythrin conjugate on the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol.
Scan protocol GeneChips were scanned on Affymetrix Scanner G7
Description Col-0 flower bud total RNA Forward replicate 1
Data processing Gene chip data files were processed using TileMap to identify regions of significant changes in gene expression, with a cutoff of 0.6 pp.
 
Submission date Apr 03, 2008
Last update date May 15, 2008
Contact name Joseph R Ecker
E-mail(s) ecker@salk.edu
Phone 8584534100
Organization name HHMI-Salk-Institute
Department Genomic Analysis Laboratory
Lab Ecker lab
Street address 10010 North Torrey Pines Road
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
 
Platform ID GPL1979
Series (1)
GSE11070 A link between RNA metabolism and silencing affecting Arabidopsis development

Data table header descriptions
ID_REF unique id constructed from x-y coordinates, chromosome, and start position.
VALUE Probe signal intensity.

Data table
ID_REF VALUE
x1000_y1_chr2_6103351 360.0
x1000_y10_chr5_11328843 367.0
x1000_y100_chr1_11173471 105.0
x1000_y1000_chr2_4230315 342.0
x1000_y1001_chr4_17924052 172.0
x1000_y1002_chr5_352659 703.0
x1000_y1003_chr3_3806849 398.0
x1000_y1004_chr2_7034458 1195.0
x1000_y1005_chr5_5623850 290.0
x1000_y1006_chr3_16943841 127.0
x1000_y1007_chr2_18563368 412.0
x1000_y1008_chr1_9374203 395.0
x1000_y1009_chr2_18400853 252.0
x1000_y101_chr2_17338467 189.0
x1000_y1010_chr5_9615492 296.0
x1000_y1011_chr3_13237160 337.0
x1000_y1012_chr1_11614292 260.0
x1000_y1013_chr3_3875749 2013.0
x1000_y1014_chr1_24184095 342.0
x1000_y1015_chr3_9719314 356.0

Total number of rows: 6184720

Table truncated, full table size 185311 Kbytes.




Supplementary file Size Download File type/resource
GSM279165.CEL.gz 41.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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