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Series GSE51009 Query DataSets for GSE51009
Status Public on Nov 04, 2014
Title Gene expression in macrophages derived form wild-type and Ndfst1-deficient mice before and after foam cell conversion
Organism Mus musculus
Experiment type Expression profiling by array
Summary In order to examine the role of macrophage heparan sulfate proteoglycans in atherogenesis, we inactivated the biosynthetic gene N-acetylglucosamine N-deacetylase-N-sulfotransferase 1 (Ndst1) in macrophages. In order to determine the impact of altering Ndst1 expression, we crossbred mice bearing a conditional loxP-flanked (“floxed”) allele of Ndst1 (Ndst1f/f) to transgenic mice expressing the bacterial Cre recombinase under control of the lysozyme 2 promoter (LysMCre) to drive inactivation of the gene in myeloid cells. We compared the transcriptome of bone marrow derived macrophages from Ndst1f/fLysMCre- and Ndst1f/fLysMCre+ macrophages in basal growth medium and after foam cell conversion using 50µg/ml of aggregated LDL (agLDL) to asses the impact of altered macrophage heparan sulfate sulfation on gene expression.
 
Overall design Total RNA obtained from bone marrow derived macrophages (BMDM) derived form two wild-type and two Ndfst1-deficient mice before and after foam cell conversion and analyzed in diplicate (n=4 for each conditions; total of 4 conditions)
 
Contributor(s) Gordts PL, Erbilgin A, Lusis AJ, Esko JD
Citation(s) 25440058
Submission date Sep 19, 2013
Last update date Jun 14, 2018
Contact name Philip Leo Stefan Maria Gordts
E-mail(s) pgordts@ucsd.edu
Organization name UCSD
Department CMM
Lab Esko Lab
Street address 9500 Gilman Dr #0687
City La Jolla
State/province CA
ZIP/Postal code 92093
Country USA
 
Platforms (1)
GPL6885 Illumina MouseRef-8 v2.0 expression beadchip
Samples (16)
GSM1234763 WT_1.1
GSM1234764 agLDL WT_1.1
GSM1234765 Ndst1f/fLysMCre+_1.1
Relations
BioProject PRJNA219513

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
GSE51009_RAW.tar 3.1 Mb (http)(custom) TAR
GSE51009_non-normalized.txt.gz 2.5 Mb (ftp)(http) TXT
Raw data are available on Series record
Processed data included within Sample table

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