Integrative small and long RNA omics analysis of human healing and nonhealing wounds discovers cooperating microRNAs as therapeutic targets


If you use it in published research, please cite: Zhuang Liu*, Letian Zhang*, Maria-Alexandra Toma, Dongqing Li, Xiaowei Bian, Irena Pastar, Marjana Tomic-Canic, Pehr Sommar, Ning Xu Landén. Integrative small and long RNA omics analysis of human healing and nonhealing wounds discovers cooperating microRNAs as therapeutic targets. eLife 11:e80322 (*Co-first author)

In this tutorial, we will give you a brief introduction of playing around with the miRNA-mRNA profiling visualization tool for normal acute wounds and venous ulcers in human skin.


There are five sections as below:

  • miRNA-mRNA expression: You can check the expressions of miRNA and mRNA by searching the microRNA name (Left: e.g. hsa-miR-34a-5p) and mRNA gene symbol name (Right: e.g. LGR4), respectively. Saving these plots as .PDF files.
  • DE miRNA analysis & DE mRNA analysis: Here, checking the lists of miRNAs and mRNAs in the differential expression (DE) analysis across different conditions (e.g. VU vs. Skin, VU vs. Wound1, VU vs. Wound7) by using different criteria (e.g. log2(fold change), p adjust value). Saving the heatmap and dataset if you like it.
  • miRNA WGCNA & mRNA WGCNA: In addition, checking the gene lists of miRNA and mRNA modules in the weighted gene co-expression network analysis (WGCNA) in different conditions. Visualizing the expression of top 20 kME (module membership: the higher means the more contribution) genes in each module. Saving the heatmap and dataset if you like it.


VIDEO DEMO