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Series GSE56845 Query DataSets for GSE56845
Status Public on Apr 17, 2014
Title Deep transcriptional sequencing of mucosal challenge compartment from rhesus macaques acutely infected with simian immunodeficiency virus implicates loss of cell adhesion preceding immune activation
Organism Macaca mulatta
Experiment type Expression profiling by high throughput sequencing
Summary Recent studies of nonhuman primates (NHPs) have suggested that during the acute phase of infection, antiviral mucosal immunity is restricting viral replication in the primary infection compartment. These studies imply that HIV achieves systemic infection as a consequence of a failure in host antiviral immunity. Here, we used high-dose intrarectal inoculation of rhesus macaques with SIVmac251 to examine how the mucosal immune system is overcome by SIV during acute infection. The host response in rectal mucosa was characterized by mRNA deep sequencing (mRNA-seq) at 3 and 12 days post inoculation (DPI) in 4 animals for each time point.
 
Overall design The eight RMs were intrarectally challenged with SIVmac251 using 1 mL of a high-dose inoculum (6000 TCID50/mL). SIV inoculates were deposited at a rectal depth of 25 mm from the anus. Baseline rectal samples were obtained 14 days prior to viral challenge by pinch biopsy.
 
Contributor(s) Barrenas F, Palermo RE, Agricola B, Agy MB, Aicher L, Carter V, Flanary L, Green RR, McLain R, Li Q, Lu W, Murnane R, Peng X, Thomas MJ, Weiss JM, Anderson DM, Katze MG
Citation(s) 24807713
Submission date Apr 16, 2014
Last update date Aug 01, 2014
Contact name Michael Katze
E-mail data@viromics.washington.edu
Organization name University of Washington
Department Microbiology
Lab Michael G. Katze, Ph.D
Street address Rosen Building 960 Republican St.
City Seattle
State/province WA
ZIP/Postal code 98109-4325
Country USA
 
Platforms (1)
GPL13766 Illumina Genome Analyzer IIx (Macaca mulatta)
Samples (23)
GSM1370149 BF39_Basal_50_R1
GSM1370150 E2_Basal_50_R1
GSM1370151 R09076_Basal_50_R1
Relations
BioProject PRJNA244757
SRA SRP041216

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
GSE56845_gene_counts_Rhesus_Ensembl.txt.gz 727.7 Kb (ftp)(http) TXT
Raw data are available in SRA
Processed data is available on Series record

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