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Series GSE4935 Query DataSets for GSE4935
Status Public on Mar 25, 2007
Title wheat expression level polymorphism study 39 genotypes 2 biological reps
Organism Triticum aestivum
Experiment type Expression profiling by array
Summary The use of statistical tools established for the genetic analysis of quantitative traits can be applied to gene expression data. Quantitative trait loci (QTL) analysis can associate expression of genes or groups of genes with particular genomic regions and thereby identify regions that play a role in the regulation of gene expression. A segregating population of 41 doubled haploid (DH) lines from the hard red spring wheat cross RL4452 x AC Domain was used. This population had previously been mapped with microsatellites and includes a full QTL analysis for agronomic and seed quality traits. Expression analysis from 5 day post anthesis developing seed was conducted on 39 of the 41 DH lines using the Affymetrix wheat array. Expression analysis of developing seeds from field grown material identified 1,327 sequences represented by Affymetrix probe sets whose expression varied significantly between genotypes of the population. A sub-set of 378 transcripts were identified that each mapped to a single chromosome interval illustrating that major expression QTLs can be found in wheat. Genomic regions corresponding to multiple expression QTLs were identified that were coincident with previous identified seed quality trait QTL. These regions may be important regulatory regions governing economically important traits. Comparison of expression mapping data with physical mapping for a sub-set of sequences showed that both cis and trans acting expression QTLs were present.
Keywords: genetic differences, expression QTL
 
Overall design 39 genotypes of mapping population RL4452 x AC Domain with 2 biological replicates per genotype. Grown in the field in a lattice design
 
Contributor(s) Jordan M, Somers D
Citation(s) 17388792
Submission date May 26, 2006
Last update date Dec 04, 2018
Contact name Mark Jordan
E-mail(s) mcjordan@agr.gc.ca
Organization name Agriculture and Agri-Food Canada
Department Cereal research Centre
Street address 195 Dafoe Rd.
City Winnipeg
State/province Manitoba
ZIP/Postal code R3T 2M9
Country Canada
 
Platforms (1)
GPL3802 [wheat] Affymetrix Wheat Genome Array
Samples (78)
GSM111174 genotype G30 developing seed at 5 days after anthesis, biological rep1
GSM111175 genotype G30 developing seed at 5 days after anthesis, biological rep2
GSM111176 genotype E5 developing seed at 5 days after anthesis, biological rep1
Relations
BioProject PRJNA95889

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE4935_RAW.tar 631.2 Mb (http)(custom) TAR (of CEL, EXP)
Raw data provided as supplementary file

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