GEO Publications
Handout
NAR 2013 (latest)
NAR 2002 (original)
All publications
FAQ
MIAME
Email GEO
NCBI
>
GEO
>
Accession Display
Not logged in |
Login
GEO help:
Mouse over screen elements for information.
Scope:
Self
Platform
Samples
Series
Family
Format:
HTML
SOFT
MINiML
Amount:
Brief
Quick
GEO accession:
Sample GSM146372
Query DataSets for GSM146372
Status
Public on Mar 31, 2007
Title
Golden Promise shoot Salt, biological rep 1
Sample type
RNA
Source name
Golden Promise shoot
Organism
Hordeum vulgare
Characteristics
Genotype: Golden Promise
Treatment protocol
salt shoot
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 shoot
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
149.6
P
0.011384
AFFX-BioB-M_at
81.3
P
0.000662
AFFX-BioB-3_at
69.7
P
0.003595
AFFX-BioC-5_at
281.2
P
0.000169
AFFX-BioC-3_at
338.1
P
0.000052
AFFX-BioDn-5_at
459.8
P
0.000044
AFFX-BioDn-3_at
1579.2
P
0.000147
AFFX-CreX-5_at
2506.5
P
0.000044
AFFX-CreX-3_at
5270.3
P
0.000044
AFFX-DapX-5_at
191.2
P
0.000081
AFFX-DapX-M_at
670
P
0.000195
AFFX-DapX-3_at
1342.3
P
0.000044
AFFX-LysX-5_at
46.8
P
0.000225
AFFX-LysX-M_at
102.6
P
0.020022
AFFX-LysX-3_at
228.6
P
0.000225
AFFX-PheX-5_at
89.9
P
0.000127
AFFX-PheX-M_at
81.7
P
0.009337
AFFX-PheX-3_at
151.3
P
0.00006
AFFX-ThrX-5_at
93.7
P
0.003212
AFFX-ThrX-M_at
175.2
P
0.000195
Total number of rows:
22840
Table truncated, full table size
703 Kbytes
.
Supplementary file
Size
Download
File type/resource
GSM146372.CEL.gz
3.4 Mb
(ftp)
(http)
CEL
Raw data provided as supplementary file
|
NLM
|
NIH
|
GEO Help
|
Disclaimer
|
Accessibility
|