Lars Barquist

Assistant Prof @UofT, research group leader @Helmholtz_HIRI. Pathogen systems biology / informatics / functional genomics. Coastal New Hampshirite. Drink Moxie.

[Lars Barquist @LBarquist]

Very excited about our latest combining advanced cell culture, transposon-insertion sequencing, and statistical modeling to map Shigella virulence determinants in organoid models. Great collaboration w/ @dimartino_ml @SellinLab, out in @NatureGenet

https://t.co/3Z5ci8muJa

[Lars Barquist @LBarquist]

Our paper on predicting drug resistance in bacteria is out @PLOSBiology. We show ignoring phylogenetic structure in genome collections leads to overly optimistic evaluations of machine learning methods for AMR prediction. From @YanyingYu w/ @nwheeler443. https://t.co/znd0m2Vmtd

[Nature Methods @naturemethods]

Research Highlight by @madhuramukho: Capturing host-microbe interactions

https://t.co/eNnYotQVdD

[Severin Ronneau @SRonneau]

Happy to share our lastest story (with @HallezLab, @LBarquist, @CMichaux13) ! We show how host-relevant stress disrupts Fe-S cluster stability, tuning (p)ppGpp levels to control bacterial adaptation and trigger virulence.
Read more here 👉 https://t.co/dAaXSwo0tM

[UTM Research & Innovation @UTM_Research]

Could lab-grown mini-organs help scientists research a range of infections? A new study published in @Nature Genetics shows how researchers have mapped how the Shigella bacterium infects the human gut.

Read our interview with study co-author @LBarquist: https://t.co/kAST73Mbz9.

[Nature Portfolio @NaturePortfolio]

A study in @NatureGenet establishes the comprehensive genome-wide map of Shigella genes required to infect human intestinal epithelium. https://t.co/wVO6axkTvw

[Lars Barquist @LBarquist]

Very excited about our latest combining advanced cell culture, transposon-insertion sequencing, and statistical modeling to map Shigella virulence determinants in organoid models. Great collaboration w/ @dimartino_ml @SellinLab, out in @NatureGenet

https://t.co/3Z5ci8muJa

[Waggoner Lab @LabWaggoner]

Large-scale organoid models, combined with genome-wide mutagenesis screening, reveals virulence factors required for Shigella colonization @dimartino_ml @NatureGenet @SellinLab @LBarquist
https://t.co/dMH7HkmgHy
https://t.co/Zd4vrxvUU8

[GigaScience @GigaScience]

Presenting a new flexible web platform for sharing and integrating microbial omics data, including RNA-seq and transposon-insertion sequencing.

Micromix: web infrastructure for visualizing and remixing microbial ‘omics data https://t.co/wiK85Jb44R

[Nicole Wheeler @nwheeler443]

New paper, discussing open problems in bacterial phenotype prediction with ML: https://t.co/3mT41Z8gDD

[Mikael Skurnik @SkurnikMikael]

I am happy to tell that our collaborative review article on #PhageTherapy has been just published in Nature Reviews Methods Primers https://t.co/Te7YbdVMyG

[Lars Barquist @LBarquist]

Interested in collecting, sharing, and interacting with large collections of bacterial functional genomics data (RNA-seq, Tn-seq/TraDIS, etc.)? Check out our new web platform, Micromix, with case studies for Salmonella and Bacteroides! Thread 1/n

https://t.co/ClLRKgtrFz

[Anton Petrov @AntonIPetrov]

🚀 New Paper Alert! 🚀

𝐑𝟐𝐃𝐓: a comprehensive platform for visualising RNA secondary structure

Check it out in @NAR_Open:
https://t.co/B9jkDWILg6

Here’s why you should give it a try 🧵👇

[Lars Barquist @LBarquist]

Anyway, we hope to build this out into a series of community resources -- hope people find it useful and feel free to get in touch if you're interested in using it!

[Lars Barquist @LBarquist]

Interested in collecting, sharing, and interacting with large collections of bacterial functional genomics data (RNA-seq, Tn-seq/TraDIS, etc.)? Check out our new web platform, Micromix, with case studies for Salmonella and Bacteroides! Thread 1/n

https://t.co/ClLRKgtrFz

[Lars Barquist @LBarquist]

We've already applied this together with the @WestermannLab to build a web server for Bacteroides thetaiotaomicron (https://t.co/hrPG8KBAfG), you can check that out here: https://t.co/h9VT0NVcyT

[Paperpile @paperpile]

When you find a key paper, the last thing you want is to miss related studies that could strengthen your literature review.

Connected Papers can help you uncover related research.

You can now save references discovered in @ConnectedPapers directly to Paperpile. Learn more in our blog post 🔽
https://t.co/VUR9gwytqc