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Series GSE17961 Query DataSets for GSE17961
Status Public on Jan 31, 2010
Title Winter and fall gene expression in rainbow smelt liver
Platform organism Salmo salar
Sample organism Osmerus mordax
Experiment type Expression profiling by array
Summary Rainbow smelt (Osmerus mordax) are freeze-resistant fish that accumulate glycerol and produce an antifreeze protein during winter. Quantitative reverse transcription-PCR (qPCR) and subtractive hybridization studies have revealed a few genes in smelt liver to be differentially regulated in winter in comparison with the fall when water temperatures are warmer. In order to further define the suite of processes that are regulated seasonally, we undertook a large-scale analysis of gene expression by hybridization of smelt cDNA to the salmonid 16K cGRASP cDNA microarray.
These microarray experiments were conducted as a focused sieving exercise, which identified informative genes for further study in the microarray samples and over a seasonal sampling series using quantitative reverse-transcription PCR.
 
Overall design Total RNA was obtained from livers of 3 male fish sampled on October 20th and aliquots were pooled to contain equimolar concentrations of each RNA preparation. Total RNA was prepared from 3 male fish on January 3rd and processed in the same manner. Fluorescently labeled cDNA preparations were made using the fall (October) and winter (January) pools and mixed before hybridization to the microarray. The cDNAs were hybridized to three separate microarrays in order to generate technical replicates. Differential expression was assessed in order to select genes for further study.
 
Contributor(s) Richards RC, Short CE, Driedzic WR, Ewart KV
Citation(s) 20107851
Submission date Sep 03, 2009
Last update date Mar 21, 2012
Contact name Kathryn Vanya Ewart
E-mail(s) vanya.ewart@nrc-cnrc.gc.ca
Phone (902) 426-0636
Fax (902) 426-9413
URL http://www.nrc-cnrc.gc.ca/eng/ibp/imb.html
Organization name NRC Institute for Marine Biosciences
Department Marine Bioactives Group
Street address 1411 Oxford St.
City Halifax
State/province NS
ZIP/Postal code B3H 3Z1
Country Canada
 
Platforms (1)
GPL6260 cGRASP Salmon 16k cDNA array
Samples (3)
GSM449687 Fall-Winter cDNA pool replicate 1
GSM449688 Fall-Winter cDNA pool replicate 2
GSM449689 Fall-Winter cDNA pool replicate 3
Relations
BioProject PRJNA119927

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
GSE17961_RAW.tar 6.6 Mb (http)(custom) TAR (of TXT)
GSE17961_combined_3_chips.xls.gz 593.4 Kb (ftp)(http) XLS
Processed data included within Sample table
Processed data are available on Series record

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