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Series GSE23857 Query DataSets for GSE23857
Status Public on Oct 01, 2010
Title QX recombinant inbred advanced intercross lines of C. elegans
Organism Caenorhabditis elegans
Experiment type Expression profiling by array
Summary Mutation generates the heritable variation that genetic drift and natural selection shape. In classical quantitative genetic models, drift is a function of the effective population size and acts uniformly across traits, while mutation and selection act trait-specifically. We identified thousands of quantitative trait loci (QTL) influencing transcript abundance traits in a cross of two C. elegans strains; although trait-specific mutation and selection explained some of the observed pattern of QTL distribution, the pattern was better explained by trait-independent variation in the intensity of selection on linked sites. Our results suggest that traits in C. elegans exhibit different levels of variation less because of their own attributes than because of differences in the effective population sizes of the genomic regions harboring their underlying loci.
 
Overall design RNA was measured from developmentally synchronized young adult hermaprhodites from each of 208 recombinant inbred advanced intercross lines. Strains were grown at 20 degrees C on NGM plates seeded with OP50 E. coli, following standard C. elegans procedures. Experimental methods follow those described in Capra et al., PLoS ONE 3, e4055 (2008). The genotypes of the 208 strains are detailed in Rockman and Kruglyak, PLoS Genet 5, e1000419 (2009). Each sample was cohybridized with a common pooled reference, with Cy3 and Cy5 assigned randomly to sample or reference for each experiment. Please also see 'Genotypes.txt' file available on the Series record for strain/genotype details.
 
Contributor(s) Rockman M, Skrovanek S, Kruglyak L
Citation(s) 20947766
Submission date Aug 27, 2010
Last update date Dec 06, 2012
Contact name Matthew Rockman
E-mail(s) mrockman@nyu.edu
Organization name New York University
Street address 100 Washington Sq. E.
City New York
State/province NY
ZIP/Postal code 10003
Country USA
 
Platforms (1)
GPL7727 Agilent-015061 C. elegans Oligo Microarray 4x44K G2519F (Feature Number version)
Samples (208)
GSM588088 Strain QX1 (Cy5) vs Common Reference (Cy3)
GSM588089 Strain QX194 (Cy5) vs Common Reference (Cy3)
GSM588090 Strain QX195 (Cy5) vs Common Reference (Cy3)
Relations
BioProject PRJNA130633

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

Supplementary file Size Download File type/resource
GSE23857_Genotypes.txt.gz 17.5 Kb (ftp)(http) TXT
GSE23857_RAW.tar 2.4 Gb (http)(custom) TAR (of TXT)
Processed data included within Sample table
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