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Series GSE121359 Query DataSets for GSE121359
Status Public on Jan 01, 2019
Title Sphingosine kinase 2 signaling modulates altered expression profile of host genome in a murine model of Pseudomonas aeruginosa pneumonia.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We present the set of pseudomonas responsive genes activated in the WT mice in comparison with Sphk2-/- thereby revealing the genes that could contribute to the protection seen in Sphk2-/- mice.
Methods: Lung mRNA profiles of 8 week old male wild-type (WT) and Sphingosine kinase 2 knock out (Sphk2−/−) mice were generated by deep sequencing, in triplicate, using Illumina GAIIx. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two way ANOVA (ANOVA). qRT–PCR validation was performed using SYBR Green assays
Genetic deletion of Sphk2-/-resisted alteration of host pulmonary genome by PA infection of the lungs promoting its own virulence thereby conferring significant protection against PA pneumonia.
 
Overall design Age- and weight-matched male WT, Sphk1-/-, and Sphk2-/- mice were administrated a single intratracheal infusion of sterile PBS or PA103 in P (1x106 CFU/mouse). After 24 h of treatment, lung tissue was collected.
Lung tissue was perfused with PBS prior to harvesting from the mice, and processed immediately after harvesting. Whole lung tissue was used to isolate total RNA using microRNeasy® kit (Qiagen, Maryland, Cat no. 74004).
 
Contributor(s) Ebnezer D, Fu P, Harijith A, Natarajan V
Citation(s) 31842752
Submission date Oct 16, 2018
Last update date Dec 31, 2019
Contact name Zarema H Arbieva
E-mail(s) zarbieva@uic.edu
Phone 312-355-1608
Organization name UIC
Department RRC
Lab Core Genomics Laboratory
Street address 835 S. Wolcott A301
City Chicago
State/province IL
ZIP/Postal code 60612
Country USA
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (12)
GSM3432505 WT Control 1
GSM3432506 WT Control 2
GSM3432507 WT Control 3
Relations
BioProject PRJNA497121
SRA SRP165919

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Supplementary file Size Download File type/resource
GSE121359_raw_counts.txt.gz 381.9 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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