Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 13
Release date: Nov 4 2016
Last update date: Jun 14 2018
Access: Public
Diseases: Cardiovascular Diseases, Intervertebral Disc Degeneration
Chemicals: Bile Acids and Salts, Cholesterol
Dataset link Transintestinal cholesterol transport is important in mice and humans and controls ezetimibe induced fecal neutral sterol excretion

Experimental Protocol


8 controls and 5 EZE-treated mice. For microarray analysis, intestinal (proximal) RNA was prepared from EZE 0.005%-compound and regular chow fed C57BL/6J mice using TRI-reagent (Sigma-Aldrich, St. Louis, MO, USA). RNA quality and concentration was assessed with an Biorad Experion Bioanalyzer. Starting with 200 ng of RNA, with an RNA Quality Indicator of at least 7. RNA was amplified and labeled using the Illumina TotalPrep RNA Amplification Kit (Applied Biosystems, Nieuwekerk ad IJssel, The Netherlands). The MouseRef-8 v2.0 expression beadchip arrays, containing 25697 transcripts (Illumina, San Diego, USA), were processed according to the manufactures protocol and slides were scanned immediately. Quality control, normalization (quantile), batch correction (Combat), prefiltering (fold change 1.1) and statistics (IBMT) were performed in MADMAX. A list of significant changed annotated genes between EZE (n = 5) and WT (n = 8), including False Discovery Rates (FDR)-corrected p-values (10%) was generated. Identification of KEGG pathway enrichment analysis among responsive genes was performed using the DAVID Functional Annotation Clustering tool.

Repositories


GEO

GSE77236

BioProject

PRJNA309830

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Contact


vincent bloks