NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1416763 Query DataSets for GSM1416763
Status Public on Feb 24, 2015
Title B-RNA-rep2
Sample type RNA
 
Source name The third leaf stage, RNA
Organism Aegilops speltoides
Characteristics genotype/variation: Diploid progenitor of hexaploid wheat
Growth protocol Seeds were planted in Sunshine Mix #1 (Sun Gro, Canada) and maintained in a plant growth chamber with an average day/night temperature of 23/20°C, 14 h of light (12,000 LUX), and a relative humidity of 60% for 10 days. When plants reached the third leaf stage, the whole seedling including leaf and roots were harvested for RNA isolation.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from seedlings using TRIzol reagent (Invitrogen, USA), according to the manufacturer’s protocol.
Label Cy3
Label protocol Labeling was performed by NimbleGen Systems Inc., following their standard operating protocol. See www.nimblegen.com.
 
Hybridization protocol Hybridization was performed by GreenGene Biotech Inc (http://www.ggbio.com), Republic of Korea following their standard operating protocol.
Scan protocol Scanning was performed by GreenGene Biotech Inc (http://www.ggbio.com), Republic of Korea following their standard operating protocol.
Description This sample is of B genome progenitor of hexploaid wheat. It is the second of two biological replicates used in this experiment.
Data processing The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis).
 
Submission date Jun 19, 2014
Last update date Feb 24, 2015
Contact name Tong Geon Lee
E-mail(s) agrospel@illinois.edu
Organization name University of Illinois
Street address 1101 W Peabody
City Urbana
State/province IL
ZIP/Postal code 61801
Country USA
 
Platform ID GPL18847
Series (1)
GSE58678 Expression analysis of individual homoeologous wheat genome- and rye genome-specific transcripts in a 2BS.2RL wheat-rye translocation

Data table header descriptions
ID_REF
VALUE RMA-normalized, averaged gene-level signal intensity. Z score transformation.

Data table
ID_REF VALUE
Aspeltoides_ESTC000001 11787.5
Aspeltoides_ESTC000002 12680.1
Aspeltoides_ESTC000003 10304.8
Aspeltoides_ESTC000004 18175.3
Aspeltoides_ESTC000005 10791.6
Aspeltoides_ESTC000006 676.851
Aspeltoides_ESTC000007 1346.7
Aspeltoides_ESTC000008 14052.2
Aspeltoides_ESTC000009 10971.8
Aspeltoides_ESTC000010 3279.81
Aspeltoides_ESTC000011 1079.42
Aspeltoides_ESTC000012 3226.35
Aspeltoides_ESTC000013 15935.2
Aspeltoides_ESTC000014 12482.3
Aspeltoides_ESTC000015 3207.2
Aspeltoides_ESTC000016 11580.2
Aspeltoides_ESTC000017 7766.58
Aspeltoides_ESTC000018 7716.71
Aspeltoides_ESTC000019 260.891
Aspeltoides_ESTC000020 12668.1

Total number of rows: 56863

Table truncated, full table size 1614 Kbytes.




Supplementary file Size Download File type/resource
GSM1416763_KU2_2_532_nm_norm_RMA.pair.gz 1.9 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap