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Sample GSM382237 Query DataSets for GSM382237
Status Public on May 13, 2009
Title Root_Control3
Sample type RNA
Source name Barley roots grown in control conditions
Organism Hordeum vulgare
Characteristics tissue: root
agent: control
Growth protocol Barley (Hordeum vulgare L. cv. Graphic) seeds were carefully chosen with similar weight, shape and size and sown in 1 L pots containing sand in a glasshouse for 15 days (Experimental Fields of the University of Barcelona) and irrigated with a half strength Hoagland solution containing either 0 µM (control), 500 µM or 1000 µM of HgCl2. Daily means of temperature, relative humidity and maximum irradiance in the glasshouse throughout the experiment were 16ºC, 45% and 378 Wm-2, respectively. For root and shoot dry weight, 5 plantlets were sampled, immediately frozen in liquid nitrogen, lyophylized and dry weights were recorded and shoot to root ratio calculated. Additional three plantlets per treatment (only controls and 1000 μM HgCl2) were sampled and the entire roots were separated from leaves, washed with de-ionized water and immediately frozen in liquid N and kept at -80ºC until use for RNA extractions.
Extracted molecule total RNA
Extraction protocol Trizol reagent and Rneasy Quiagen
Label biotin
Label protocol Standard Affymetrix procedures.
Hybridization protocol Standard Affymetrix procedures.
Scan protocol Standard Affymetrix procedures.
Description All sample extraction and micro chip manipulation were carried out at PROGENIKA, in SPAIN (Bilbao)
Data processing Normalization was carried out in 2 steps: using GeneSpring v7.1 (Agilent) and previously scaled with GCOS.
Submission date Mar 19, 2009
Last update date May 12, 2009
Contact name Marta Silva Lopes
Fax 525558047558
Organization name cimmyt
Department wheat physiology
Street address km 45, carretera Mexico-Veracruz, El Batan, Texcoco
City Texcoco
State/province Mexico
ZIP/Postal code 56130
Country Mexico
Platform ID GPL1340
Series (1)
GSE15295 Mercury toxicity in barley roots

Data table header descriptions
VALUE normalized signal intensity

Data table
Contig23856_at 0.565579
Contig19597_at 2.8832998
Contig23204_at 2.427305
Contig10980_at 0.68823117
HA12D17u_at 3.6836572
Contig20794_at 0.10063652
HD11L13r_at 1.4168162
Contig20142_at 1.2350432
Contig2681_at 0.7713576
Contig3149_at 0.8232672
HVSMEg0009O12r2_at 0.54322064
Contig8323_at 2.4314106
HVSMEf0010D24f2_x_at 0.40712267
Contig19747_at 0.11278126
rbags25i16_x_at 0.104061045
Contig8493_at 1.1378583
Contig9740_s_at 1.2676554
HW08C04u_at 0.9790332
Contig13710_at 1.0173247
Contig19265_at 4.8522286

Total number of rows: 22795

Table truncated, full table size 564 Kbytes.

Supplementary file Size Download File type/resource
GSM382237.CEL.gz 2.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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