Day 2 of #pha4gecon: Sarah Hersey (Head of WHO IPSN) chairing resource limited infra for pathobioinf. First Joel Sevinsky, building on www.nature.com/articles/s41... Terra+theaigen wfs FISMA/FedRAMP compliant example. Cloud costs 1-2% of consumables. New Theaigen Global Health Initiative non-profit

Kim Ng (SSI) on IT challenges scaling infrastructure and new MicrobeSeq initiative microbeseqen.ssi.dk/about-microb... federating regional and SSI HPC based on IRIDA, microreact, galaxy, nextflow, ansible, git, and PHA4GE/elixir standards/recommendations. Key message: don't reinvent the wheel!

Abebe Negeri (Ethiopian Public Health Institute) new Pathogen Genomics Core Facility est. 2021, largely SC2 so far but plans for HIV, TB, polio, AMR, IPAC etc. Integration of multiple programs key for sustainability and making most of a core. Need for full time staff and well-defined career paths!

Gerald Mboowa (AfricaCDC): 10 genomics centers for excellence coming w/ ACEGID/SANBI/KRISP bioinf support. 2019-2023: only 7 countries with WGS to only 7 without. ONT&Ill diversify the risk of reagent access issues. Federated African Pathogen Data Sharing & Archive to try and solve data challenges.

Bryan Wee (Roslin) on contextual data for Uganda One Health AMR digital-one-health.github.io w/ red, yellow, green tags for sensitivity and harmonisation of data from ag, env, & clinic. Multidisciplinary data meeting to inform metadata specification (w/ PHA4GE recs) before pilot E. coli seq project.

Jillian Paull (Broad) on PHA4GE's wastewater contextual data specification. Making sure investment in WW capacity is not wasted by bad data. Machine readability, interoperability to other specs, reuse of terms from pubmed.ncbi.nlm.nih.gov/35169842/, & input from HIC/LMIC folks across disciplines.

Patiyan Anderson (MDU-PHL) on AusPathoGen umbrella with data management and Viz via AusTrakka (www.cdgn.org.au/austrakka). Need to optimise data collection to inform surveillance. Core+pathogen specific data driven by end-goal analyses (aiding buy-in and actually having actionable data).