Assays

This compares the five conditions Control at 24 hours, Methanobrevibacter smithii (MBS) at 4 and 24 hours, Methanosphaera stadtmanae (MSS) at 4 and 24 hours in a joint model. The respective conditions are abbreviated Control_24h, MBS_4h, MBS_24h, MSS_4h, MSS_24h

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA sequencing of archaean stimulated ...

Study: Differential expression

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Main workflow results as HTML report, Quality report using MultiQC, Workflow results: plots, Workflow results: tables

Snapshots: No snapshots

Created: 22nd Jul 2025 at 09:23, Last updated: 29th Sep 2025 at 12:24

Expression profiling with heatmaps and PCA

Archaean stimulation of human primary PBMCs and PBMCs monocytes

No description specified

Submitter: Inken Wohlers

Biological problem addressed: Model Analysis Type

Investigation: Illumina RNA sequencing of archaean stimulated ...

Study: Transcriptome profiling

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Quarto document with R code for transcriptome p...

Snapshots: No snapshots

Created: 22nd Jul 2025 at 09:12, Last updated: 29th Sep 2025 at 12:23

Mice (in vivo)

PoLiMeR - Polymers in the Liver: Metabolism and Regulation

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MCAD-KO mice (C57BL/6J background) were exposed to three different conditions: "fed", "fasting", and "fasting + cold". In this study we determined the concentration of various CoA biosynthetic intermediates (including CoA) and the expression of CoA metabolic genes in liver tissue samples from these groups of mice.

Submitter: Christoff Odendaal

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Mitochondrial fatty acid oxidation in human liver

Study: Sequestration of CoA and adaptation of CoA meta...

Organisms: No organisms

SOPs: No SOPs

Data files: Mice CoA biosynthetic intermediates (Fig. 4C), Mice qPCR (Fig. 4E-F), Mouse liver body temperature (Fig. S10)

Snapshots: No snapshots

Created: 9th May 2025 at 15:22, Last updated: 12th Sep 2025 at 12:29

HepG2 cells (in vitro)

PoLiMeR - Polymers in the Liver: Metabolism and Regulation

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The behaviour of a published MCAD-KO HepG2 cell line was compared to that of a wild-type HepG2 cell line in terms of the changes in acyl-CoA and acylcarnitine levels (measured by HILIC-MS/MS) and gene expression pertaining to CoA metabolism (characterised by qPCR). Additionally, the incorporation of label from stable isotope-labelled pantothenate (vitamine B5) was over 24 hours of exposure to an energetic stressor was also investigated.

Submitter: Christoff Odendaal

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Mitochondrial fatty acid oxidation in human liver

Study: Sequestration of CoA and adaptation of CoA meta...

Organisms: Homo sapiens (batch)

SOPs: No SOPs

Data files: HepG2 CoA labelling data, palmitate/no-glucose ..., HepG2 acyl-CoA measurements, palmitate/low-gluc..., HepG2 acyl-CoA measurements, palmitate/no-gluco..., HepG2 acyl-CoA/acylcarnitine measurements stati..., HepG2 acyl-CoA/acylcarnitine measurements stati..., HepG2 acylcarnitine measurements, palmitate/low..., HepG2 acylcarnitine measurements, palmitate/no-..., HepG2 qPCR statistical significance, palmitate/..., HepG2 qPCR statistical significance, palmitate/..., HepG2 qPCR, PANK isoform expression (Fig. S9), HepG2 qPCR, palmitate/low-glucose (Fig. S13), HepG2 qPCR, palmitate/no-glucose (Fig. S11)

Snapshots: No snapshots

Created: 9th May 2025 at 14:50, Last updated: 12th Sep 2025 at 12:28