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The integrated RNA landscape of renal preconditioning against ischemia reperfusion injury

Marc Johnsen, Torsten Kubacki, Assa Yeroslaviz, Martin Richard Späth, Jannis Mörsdorf, Heike Göbel, Katrin Bohl, Michael Ignarski, Caroline Meharg, Bianca Habermann, Janine Altmüller, Andreas Beyer, Thomas Benzing, Bernhard Schermer, Volker Burst and Roman-Ulrich Müller

Visualization of the supplemental table to Johnsen et al. 2020 is presented in 3 tabs:

  • Preconditioning-associated genes: Volcano plots for caloric restriction (CR) and hypoxic preconditioning (HP)-associated genes at baseline (0h)
  • Damage-associated genes: Volcano plots for damage-associated genes in non preconditioned animals (nonPC) at 4h and 24h after ischemia-reperfusion injury (IRI)
  • Interaction preconditioning and damage: Volcano plots for non preconditioning (nonPC), caloric restriction (CR) and hypoxic preconditioning (HP)-associated genes 24h after IRI versus their baseline (0h).

On each of the three tabs the user can choose one of the following "modes":

  • Mark one protein (choose one of the three options):
    • Choose the gene name from the drop down menu. OR
    • Type the gene name in the "Show a gene" field. OR
    • Select a gene in the plot (left mouse click).
  • Mark overlap genes:
    • Choose to show overlapping genes of preconditioning and/or damage associated genes.

Below each plot the data table is displayed. The data table for preselected genes can be downloaded with the button "Download data table". For the full data tables of gene lists refer to (LINK to supplements).

Raw data:

  • RNA-seq data have been deposited in the ArrayExpress database at EMBL-EBI (www.ebi.ac.uk/arrayexpress) under accession number E-MTAB-7982.
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Preconditioning-associated genes


Volcano Plots of preconditioning-associated genes

Shown are the Volcano Plots of differentially expressed genes (padj<0.05) of mice after caloric restriction (CR) and hypoxic preconditioning (HP) compared to non preconditioned animals at baseline (pre IRI)

The volcano plots show the log2 fold change on the x-axis and the significance (-log10 p-value) on the y-axis

Left: CR (CR 0h) versus non preconditioning (nonPC 0h)

Right: HP (HP 0h) versus non preconditioning (nonPC 0h)

Table:

The columns of the table below the plots show

  • gene name
  • log2FC CR, pre IRI shows the log2(foldchange) of the selected gene in CR animals compared to non preconditioning at baseline
  • adj. p-value CR, pre IRI, shown as -log10 of adj. p-value of the selected gene
  • log2FC HP, pre IRI shows the log2(foldchange) of the selected gene in HP animals compared to non preconditioning at baseline
  • adj. p-value HP, pre IRI, shown as -log10 of adj. p-value of the selected gene
Download data table
info2

Damage-associated genes

Volcano Plots of damage-associated genes

Shown are the Volcano Plots of differentially expressed genes (padj<0.05) of non preconditioned animals 4h after ischemic reperfusion injury (IRI) and 24h after IRI compared to baseline (pre IRI)

The volcano plots show the log2 fold change on the x-axis and the significance (-log10 p-value) on the y-axis

Left: Non preconditioning 4h (after IRI) versus non preconditioning 0h (pre IRI)

Right: Non preconditioning 24h (after IRI) versus non preconditioning 0h (pre IRI)

Table:

The columns of the table below the plots show:

  • gene name
  • log2FC nonPC, 4h post IRI shows the log2 (foldchange) of the selected gene in non preconditioned animals 4h after IRI compared to non preconditioning at baseline (0h)
  • adj. p-value nonPC, 4h post IRI, shown as -log10 of adj. p-value of the selected gene
  • log2FC nonPC, 24h post IRI shows the log2 (foldchange) of the selected gene in non preconditioned animals 24h after IRI compared to non preconditioning at baseline (0h)
  • adj. p-value nonPC, 24h post IRI, shown as -log10 of adj. p-value of the selected gene
Download data table
info3

Interaction preconditioning and damage


Volcano Plots of damage-associated genes in preconditioned and non preconditioned animals

Shown are the Volcano Plots of differentially expressed genes (padj<0.05) of non preconditioned mice 24h after IRI, mice after caloric restriction (CR) 24h after IRI and mice after hypoxic preconditioning (HP) 24h after IRI compared to their corresponding baseline (nonPC, CR and HP pre IRI).

The volcano plots show the log2 fold change on the x-axis and the significance (-log10 p-value) on the y-axis

Left: nonPC 24h (post IRI) versus nonPC 0h (pre IRI)

Middle: CR 24h (post IRI) versus CR 0h (pre IRI)

Right: HP 24h (post IRI) versus HP 0h (pre IRI)

Table:

The columns of the table below the plots show:

  • gene name
  • log2FC nonPC, 24h post IRI shows the log2 (foldchange) of the selected gene in non preconditioned animals 24h after IRI compared to non preconditioned animals at baseline (0h)
  • adj. p-value nonPC, 24h post IRI, shown as -log10 of adj. p-value of the selected gene
  • log2FC CR, 24h post IRI shows the log2 (foldchange) of the selected gene in CR animals 24h after IRI compared to CR animals at baseline (0h)
  • adj. p-value CR, 24h post IRI, shown as -log10 of adj. p-value of the selected gene
  • log2FC HP, 24h post IRI shows the log2 (foldchange) of the selected gene in HP animals 24h after IRI compared to HP animals at baseline (0h)
  • adj. p-value HP, 24h post IRI, shown as -log10 of adj. p-value of the selected gene
Download data table