sipbs-compbiol/BM425-Workshop-2

Selection of a dataset - ideas

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#1 opened on May 12, 2025

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good first issue

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Description

Option 1. PRJNA1168577 from Gannon, Alexa D et al. “Exploring aggregation genes in a P. aeruginosa chronic infection model.” Journal of bacteriology vol. 207,1 (2025): e0042924. doi:10.1128/jb.00429-24

Pros: Some nice data viz in the paper and looks like it ties in nicely with functional analysis (mapping genes identified by RNA-seq to particular pathways); some fluorescence microscopy and other nice figures in the paper; nice explicit links to microbial physiology (different media and mucin added affecting gene expression) Cons: not actually a mutant dataset, so no complementation controls; not sure it would tie in well with the sort of chimera/alpha fold analyses we were mentioning

will add more as I find them...

Contributor guide

Research direction
Compare the pros and cons of the proposed datasets (PRJNA1168577 and others to be added) and evaluate which dataset best aligns with the workshop's goals of functional analysis and microbial physiology.
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data
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3
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60