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Series GSE30506 Query DataSets for GSE30506
Status Public on Dec 13, 2011
Title Response to Influenza infection in the pre-CC
Organism Mus musculus
Experiment type Expression profiling by array
Summary Using the distribution of Influenza-infected phenotypes (immunohistochemical (IHC) staining for viral protein and weight loss at 4 days post infection) in 99 Influenza-infected pre-Collaborative Cross (CC) lines, we have categorized the extreme phenotypes with regard to host response: severe (“high”) response to infection (N=26, IHC score: 4 or 5, % Weight loss > 15%) and mild (“low”) response to infection (N=18, IHC score: 0 or 1, % Weight loss < 5%). Global transcriptome profiling identified 2,671 transcripts that were significantly differentially expressed (DE; q-value < .05 and > 1.5 fold change either direction) due to differences in the host response phenotype. Using these DE transcripts, e-QTL mapping was performed to identify putative regulatory regions potentially controlling the expression of the transcripts. 21 significant e-QTLs (based on Bonferroni adjustment) were identified allowing direct examination of genes associated with regulation of host response. This is the first systems genetics study of influenza in a complex mouse model (where the level of genetic diversity approximates that seen in human populations), providing a framework for identification of causal variants and elucidation of the underlying biological sub-networks involved in response to infectious disease.
 
Overall design 44 samples each derived from a different CC line with expression measured from lung tissue at day 4 post infection. Infection was with the mouse adapted influenza A strain A/PR/8/34 (H1N1)
 
Contributor(s) Bottomly D, McWeeney SK
Citation(s) 22384400
Submission date Jul 08, 2011
Last update date Jan 12, 2017
Contact name Daniel Bottomly
E-mail(s) bottomly@ohsu.edu
Organization name OHSU
Street address 3181 Sam Jackson Park Rd.
City Portland
ZIP/Postal code 97239
Country USA
 
Platforms (1)
GPL7202 Agilent-014868 Whole Mouse Genome Microarray 4x44K G4122F (Probe Name version)
Samples (44)
GSM756624 preCC_OR3018_f46_Flu_D4
GSM756625 preCC_OR5181_f127_Flu_D4
GSM756626 preCC_OR3358_f52_Flu_D4
Relations
BioProject PRJNA143321

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
GSE30506_RAW.tar 396.4 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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