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Dorottya Nagy @dotnagy.bsky.social · 8d

🧪 ♻️ Want to make lab and computational research more sustainable? Check out our Oxford Climate Society blog post:
oxfordclimatesociety.com/blog/from-pi...
Shout out to Green Team colleagues @modmedmicro.bsky.social for helping! #LEAFAward #GreenDiSC #GreenImpact #SustainableScience

Photo of the Modernising Medical Microbiology Green Team wearing protective clothing, helmets, and safety goggles at the Ardley Energy Recovery Centre during their field trip to see first hand how Oxfordshire waste is burned, instead of ending up in landfill, to generate electricity.

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Dorottya Nagy @dotnagy.bsky.social · 9d

To summarise our recent pre-print: Autocycler, the automated consensus assembler, when used with Nanopore long-read only Enterobacterales assemblies, produces more complete chromosomes and plasmids, with an accuracy comparable to hybrid assemblies.

Figure 2 from my recently pre-printed manuscript on the completeness and accuracy of Nanopore long-read only bacterial genome assembly for Enterobacterales. a) tile plot of chromosome circularisation, with assembler on the x-axis and sample on the y-axis, shows that the consensus long-read only assembler, Autocycler, circularised more chromosomes at 95% (87/92) than any other long-read or hybrid assembler. b) complex upset plot of plasmid reconstruction, showing that the best plasmid reconstruction was achieved by long-read assemblers incorporating the separate plasmid assembly tool, Plassembler, namely Autocycler and Hybracter, reconstructing >96% of plasmids.

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Dorottya Nagy @dotnagy.bsky.social · 13d

A highly inspiring week meeting fellow infectious disease researchers, and learning how to integrate genomics with infectious disease models! Feeling very fortunate to have been selected to attend this course. Thank you @training.ebi.embl.org for organising!

EMBL-EBI Training @training.ebi.embl.org · 19d

Thank you to everyone who joined us this week for the @embo.org Practical Course 'Methods for infectious disease modelling using genomics'.

Join us for 2026's EMBO Practical Course. Sign up for 'Causality in biomedicine' alerts and hear as this new course develops: www.ebi.ac.uk/training/eve...
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Reposted by Dorottya Nagy

EMBL-EBI Training @training.ebi.embl.org · 19d

Thank you to everyone who joined us this week for the @embo.org Practical Course 'Methods for infectious disease modelling using genomics'.

Join us for 2026's EMBO Practical Course. Sign up for 'Causality in biomedicine' alerts and hear as this new course develops: www.ebi.ac.uk/training/eve...
🧬🧫

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Dorottya Nagy @dotnagy.bsky.social · 13d

Pleased to see this pre-printed, highlighting the completeness/accuracy of @nanoporetech.com long-read genome assembly for clinical Enterobacterales: www.biorxiv.org/content/10.1...

Thanks to colleagues @modmedmicro.bsky.social, @ukhsa.bsky.social, @genewiz.bsky.social and @oxfordbrc.bsky.social!

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Reposted by Dorottya Nagy

Modernising Medical Microbiology @modmedmicro.bsky.social · Apr 14

ModMedMicro at #ESCMIDGlobal (well nearly everyone!)

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Reposted by Dorottya Nagy

Modernising Medical Microbiology @modmedmicro.bsky.social · Apr 13

Busy day at #ESCMIDGlobal for us!

Check out

1330 Justin Xu in Hall 2 "AI in radiological reports"
1445 @samlipworth.bsky.social in Area 3 "Mol epi of Kleb using ONT"

P0602 @philipwfowler.bsky.social
P0663 Jeremy Westhead
P0675 Dylan Adlard
P0730 Amelie Andrews
P0869 @dotnagy.bsky.social

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