This is all enabled by a robust infrastructure that can currently support ~500 genome-wide experiments, and allows for easy development of new visualization plug-ins

This lets you easily create figures like this, showing the expression of genes in the Salmonella SPI-2 pathogenicity island across multiple conditions, as well as fitness effects in a variety of animal models, interactive server session to play with here: micromix.helmholtz-hiri.de/s…

At its core, Micromix is a graphical web interface for Python dataframes, letting you mash together and filter different datasets, then visualize the results.

Very pleased to see our interactive 3D visualization tool for bacterial single cell RNA-seq data in NAR Genomics and Bioinformatics -- great work from Max Seeger as part of his Master's in design at @THWS_Presse. Short video trailer showing it off here: youtube.com/watch?v=eoBJmHXs…

Interested in RNA-targeting antisense technologies to manipulate and kill bacteria? Come join us in Würzburg this September -- registration is open (and free!) helmholtz-hiri.de/en/asobiot…

Finally, we looked at the relationship between transcript stability and RBP binding — we find that at least half of the 500 most stable transcript are bound by RBPs, and they tend to be destabilized by RBP deletion. 13/n

… and we were able to show that this translated into a sensitivity to Hydrogen Peroxide stress in a ProQ deletion strain 12/n

We were also able to connect changes in stability to phenotypes — doing some GO term analysis of destabilized transcripts showed enrichment for transcripts involved in the oxidative stress response… 11/n

We were able to combine our stability analysis with CLIP-seq to see which RBP binding sites do lead to destabilization — for ProQ, which was known to bind 3’ UTRs, only a minority of bound transcripts are destabilized 10/n

Some striking findings: differences in stability are not correlated with differences detected by simple RNA-seq. We think this is because deletion of these global regulators leads to downstream effects on the transcriptome that don’t have much to do with direct regulation 9/n