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| Status |
Public on Jul 19, 2021 |
| Title |
Deoxynivalenol contaminated diet, pre-hepatic infusion with LPS and post-hepatic infusion with NaCl, biological rep 5 |
| Sample type |
RNA |
| |
|
| Source name |
Liver samples taken at slaughter
|
| Organism |
Sus scrofa |
| Characteristics |
tissue: non-perfused liver
diet: Deoxynivalenol
post-hepatic infusion: NaCl
pre-hepatic infusion: LPS
group: DCL
|
| Treatment protocol |
LPS (L) or 0.9% NaCl (C) were infused post-hepatic via jugular vein (second letter of group designation) and pre-hepatic via portal vein (third letter of group designation), see Characteristics field. Samples were taken at slaughtering 195 minutes after infusion.
|
| Growth protocol |
Pigs were fed restrictively with diets with or without deoxynivalenol contamination for 29 days. (C as first letter of group designation for control diet and D as first letter for deoxynivalenol contaminated diet)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Deep frozen tissue was first homogenized in liquid nitrogen using a ball mill. The resulting powder was kept under liquid nitrogen until RNA purification using the NucleoSpin® RNA kit (Macherey-Nagel GmbH & Co. KG, Düren, Germany).
|
| Label |
biotin
|
| Label protocol |
Single stranded cDNA was synthesized, biotin-labelled and fragmented (WT Plus Expression kit) according to manufacturer’s instructions (Affymetrix, Santa Clara, CA)
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| |
|
| Hybridization protocol |
Labelled DNA was hybridized on ChiGene-1_0-st Arrays. Chips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
Scanning using the GeneChip scanner 3000 were performed according to Affymetrix protocols
|
| Description |
Gene expression data from a non-perfused liver sample after feeding trial with deoxynivalenol and LPS challenge
|
| Data processing |
Data were analysed with Affymetrix GCOS 1.1.1 software using global scaling to a target signal of 500 and BioConductor.
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| |
|
| Submission date |
Apr 13, 2021 |
| Last update date |
Jul 19, 2021 |
| Contact name |
Fabian Billenkamp |
| Organization name |
Friedrich-Loeffler-Institute
|
| Street address |
Bundesallee 37
|
| City |
Braunschweig |
| ZIP/Postal code |
38116 |
| Country |
Germany |
| |
|
| Platform ID |
GPL16569 |
| Series (1) |
| GSE171991 |
Gene expression in non-perfused liver samples from endotoxemic Sus scrofa in context of deoxynivalenol contaminated diets |
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