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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
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
BioProject PRJNA143321

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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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