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GEO accession:
Sample GSM146366
Query DataSets for GSM146366
Status
Public on Mar 31, 2007
Title
Maythorpe Root Salt, biological rep 1
Sample type
RNA
Source name
Maythorpe Root
Organism
Hordeum vulgare
Characteristics
Genotype: Maythorpe
Treatment protocol
salt root
Growth protocol
hydroponics
Extracted molecule
total RNA
Extraction protocol
Trizol extraction of total RNA
Label
biotin
Label protocol
Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Hybridization protocol
GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner
Description
Gene expression data from barley root
Data processing
The data were analyzed with GCOS using Affymetrix default analysis settings and global scaling as normalization method.
Submission date
Nov 20, 2006
Last update date
Mar 31, 2007
Contact name
Harkamal Walia
Organization name
University of Nebraska
Street address
Agronomy and Horticulture
City
Lincoln
State/province
NE
ZIP/Postal code
68583
Country
USA
Platform ID
GPL1340
Series (1)
GSE6325
Array-based genotyping and expression analysis of barley cv. Maythorpe and Golden Promise
Data table header descriptions
ID_REF
VALUE
GCOS-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
254
P
0.00039
AFFX-BioB-M_at
137
P
0.000195
AFFX-BioB-3_at
133.1
P
0.000127
AFFX-BioC-5_at
440.8
P
0.00011
AFFX-BioC-3_at
342
P
0.000052
AFFX-BioDn-5_at
524.6
P
0.000044
AFFX-BioDn-3_at
2470.2
P
0.00006
AFFX-CreX-5_at
4433.4
P
0.000044
AFFX-CreX-3_at
7483.8
P
0.000052
AFFX-DapX-5_at
570.2
P
0.00007
AFFX-DapX-M_at
1246.7
P
0.000095
AFFX-DapX-3_at
2423.3
P
0.000044
AFFX-LysX-5_at
83.7
P
0.00007
AFFX-LysX-M_at
126.8
P
0.001796
AFFX-LysX-3_at
350
P
0.000044
AFFX-PheX-5_at
171.2
P
0.00007
AFFX-PheX-M_at
225.8
P
0.000195
AFFX-PheX-3_at
298.8
P
0.000081
AFFX-ThrX-5_at
169.6
P
0.000081
AFFX-ThrX-M_at
318
P
0.000044
Total number of rows:
22840
Table truncated, full table size
703 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM146366.CEL.gz
3.3 Mb
(ftp)
(http)
CEL
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