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Sample GSM279648 Query DataSets for GSM279648
Status Public on May 15, 2008
Title ein5-6Xabh1-1_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 ein5-6Xabh1-1 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 04, 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 288.0
x1000_y10_chr5_11328843 207.0
x1000_y100_chr1_11173471 228.0
x1000_y1000_chr2_4230315 300.0
x1000_y1001_chr4_17924052 256.0
x1000_y1002_chr5_352659 465.0
x1000_y1003_chr3_3806849 193.0
x1000_y1004_chr2_7034458 906.0
x1000_y1005_chr5_5623850 229.0
x1000_y1006_chr3_16943841 323.0
x1000_y1007_chr2_18563368 385.0
x1000_y1008_chr1_9374203 218.0
x1000_y1009_chr2_18400853 123.0
x1000_y101_chr2_17338467 165.0
x1000_y1010_chr5_9615492 202.0
x1000_y1011_chr3_13237160 485.0
x1000_y1012_chr1_11614292 143.0
x1000_y1013_chr3_3875749 2014.0
x1000_y1014_chr1_24184095 241.0
x1000_y1015_chr3_9719314 209.0

Total number of rows: 6184720

Table truncated, full table size 185154 Kbytes.




Supplementary file Size Download File type/resource
GSM279648.CEL.gz 41.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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