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Sample GSM1438950 Query DataSets for GSM1438950
Status Public on Feb 23, 2015
Title DKC6575_leaves at T2 not irrigated
Sample type RNA
 
Source name DKC6575 T2 stress
Organism Zea mays
Characteristics variety: DKC6575
developmental stage: silking (R1) (T2 stage)
growth condition: irrigation deficit
tissue: leaves
Treatment protocol Leaves were collected from plants at the vegetative eight-leaves (V8) (T1 stage) and at the silking (R1) (T2 stage), all at the same time of the day, immediately frozen in liquid nitrogen and stored at -80┬░C
Growth protocol Seeds were sown at a density of 80,000 plants/ha and were treated following standard agricultural practices. Each plot was fully irrigated until plants reached the vegetative six-leaf (V6) stage; from V6 to harvest they were irrigated differently : plot 1 was irrigated at 100% field capacity (control); plot 2 was not irrigated (0% field capacity, stress 2).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the Spectrum® Plant Total RNA Kit (Sigma) according to the manufacturer's instruction
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Maize Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChip 3000 scanner device
Description STRESSD
Data processing Partek Genomics Suite versione 6.5
 
Submission date Jul 17, 2014
Last update date Feb 24, 2015
Contact name Mariolina Gulli
Organization name University of Parma
Department Life Sciences
Street address Parco Area delle Scienze 11a
City Parma
ZIP/Postal code 43124
Country Italy
 
Platform ID GPL4032
Series (1)
GSE59533 Expression data from Zea mays cultivars Tietar and DKC 6575

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity

Data table
ID_REF VALUE
AFFX-BioB-5_at 217.7505
AFFX-BioB-M_at 329.1933
AFFX-BioB-3_at 311.6228
AFFX-BioC-5_at 772.2306
AFFX-BioC-3_at 995.9934
AFFX-BioDn-5_at 1853.508
AFFX-BioDn-3_at 4037.451
AFFX-CreX-5_at 12363.72
AFFX-CreX-3_at 13830.09
AFFX-DapX-5_at 123.4557
AFFX-DapX-M_at 612.2036
AFFX-DapX-3_at 1229.913
AFFX-LysX-5_at 78.31723
AFFX-LysX-M_at 102.1429
AFFX-LysX-3_at 295.2194
AFFX-PheX-5_at 95.99612
AFFX-PheX-M_at 98.86964
AFFX-PheX-3_at 126.9768
AFFX-ThrX-5_at 18.86177
AFFX-ThrX-M_at 68.32641

Total number of rows: 17734

Table truncated, full table size 448 Kbytes.




Supplementary file Size Download File type/resource
GSM1438950_R736_5_STRESSD_Maize_.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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