Yu Wan 万宇 @wanyuac.bsky.social · 03/10/2026Perfect weather for a cruise on River Mersey in Liverpool. 010
Yu Wan 万宇 @wanyuac.bsky.social · 02/10/2026Agreed. It is unfair and unsustainable to flood free publication services like arXiv with an excessive amount of fast-track manuscripts. I recall a quote from Studio Ghibli in the film The Cat Returns: "Whenever someone creates something with all of their heart, then that creation is given a soul." 041
Reposted by Yu Wan 万宇Will Ratcliff @wcratcliff.bsky.social · 28/09/2026New paper out with @kaylastoy.bsky.social: academic.oup.com/evlett/advan... 812358
Reposted by Yu Wan 万宇Wytamma @wytamma.bsky.social · 28/09/2026One of the reasons I'm interested in local AI models is you're data can't be used for training - people say “I already put my data in onedrive so what's the difference to uploading it to an AI model?” Well one difference is that onedrive won't use your data to scoop you 044
Yu Wan 万宇 @wanyuac.bsky.social · 28/09/2026A new issue of Microbiology Australia, focusing on mobile genetic elements (MGEs). 000
Yu Wan 万宇 @wanyuac.bsky.social · 26/09/2026Strongly agree, and I am deeply concerned about demand management or the so-called internal peer review, which lacks nationwide regulation, transparency, or mechanisms to avoid conflicts of interest, potentially widening inequality, compromising mobility, and particularly, disadvantaging ECRs. 001
Reposted by Yu Wan 万宇Microbiology Society @microbiologysociety.org · 25/09/2026Resistance to Antibacterial Agents. From resistance mechanisms to phage therapy & CRISPR, taught by Institut Pasteur experts. Free to join, certificate option available. 🔗 www.fun-mooc.fr/en/courses/resistan… FUN #AntimicrobialResistance #OneHealth 123
Reposted by Yu Wan 万宇British Science Association @britsciassoc.bsky.social · 25/09/2026Last Sunday at our Spogomi (competitive litter picking) Showdown at the British Science Festival in Southampton, 13 teams collectively bagged 141kg of rubbish - mostly glass bottles. That's the equivalent of a large panda, an average Sumo wrestler, or an upright piano 🫨 Well done, everyone! 141
Yu Wan 万宇 @wanyuac.bsky.social · 22/09/2026Exhibition of medical history "Dr Yan: a pioneer" at Liverpool Medical Institution between 9.30am and 5pm till 25 Sep. Dr Yan Fuqing (顏福慶; 1882-1970) is a legendary funder of many modern medical institutions in China. It's great to learn how the University of Liverpool has contributed to his career. 021
Reposted by Yu Wan 万宇Joe Hanly @hanliconius.bsky.social · 22/09/2026I hate to do this with real data, but this is a persistent data vis issue in chromosome synteny riparian plots that we Need to get better at. Left, a synteny plot published today. Right, a rearranged version with exactly the same gross arrangement but with reordered chromosomes: 29639
Yu Wan 万宇 @wanyuac.bsky.social · 21/09/2026I will be more than happy to support undergraduate medical and veterinary students to apply for the RCPath/ Microbiology Society elective award in infection, microbiology, or virology as a prospective supervisor based in Liverpool, UK. Please comment here or message me if you are interested. 033
Reposted by Yu Wan 万宇The Royal Society @royalsociety.org · 16/09/2026Why are some infections more harmful than others? Join Professor Kayla King for the Francis Crick Prize Lecture on 14 October as she explores the rapid evolution of pathogens across the tree of life: royalsociety.org/science-events-and… 5107
Reposted by Yu Wan 万宇JL Weissman @jlw-ecoevo.bsky.social · 10/09/2026My lab is hiring two(!) postdocs interested in (1) building trait prediction models capable of resolving complex microbial traits from genomes and metagenomes, and/or (2) building mathematical models of microbial community dynamics www.microbialgamut.com/mGAMUT_postd...microbialgamut.com 23644
Yu Wan 万宇 @wanyuac.bsky.social · 06/09/2026Two interesting articles about "vampirism" among bacteria. 010
Reposted by Yu Wan 万宇Cameron Thrash @jcamthrash.bsky.social · 02/09/2026The importance of interbacterial relationships in shaping cyanobacterial ecology www.cell.com/trends/micro... #jcampubs 🌊cell.comThe importance of interbacterial relationships in shaping cyanobacterial ecologyCyanobacteria are a globally abundant bacterial phylum that make key contributions to primary production and nutrient cycling in aquatic ecosystems. However, some cyanobacteria also cause substantial ... 0134
Yu Wan 万宇 @wanyuac.bsky.social · 31/08/2026It was heartbreaking to hear the devastating disaster of mudslide hitting both China and Nepal hard. My thoughts are with the losses in both countries and across the world. 🕯️🕯️🕯️ www.gov.uk/government/n...gov.ukNepal-China floods: what you can do to helpInformation on how you can support people affected by the floods and mudslide on the Nepal-China border. 010
Reposted by Yu Wan 万宇Rolling Stone @rollingstone.com · 25/08/2026Dolly Parton's family asked that, in lieu of flowers, fans make a donation to the singer's Imagination Library. Here's what the charity does ⬇️ www.rollingstone.com/music/music-...rollingstone.comTurning Pages: Inside Dolly Parton's Imagination LibraryCore team of 15 staff and thousands of volunteers and partners help the country-music philanthropist deliver books to kids around the world. 128190498288
Reposted by Yu Wan 万宇Neil Hall @neilhall.bsky.social · 20/08/2026Biological Databases are critical infrastructure - not projects. As so much effort is put into harnessing AI to solve all our problems, we are allowing the foundational data resources crumble. Treat biological databases as infrastructure, not projects www.nature.com/articles/d41...nature.comTreat biological databases as infrastructure, not projectsLetter to the Editor 35436
Reposted by Yu Wan 万宇Nabil-Fareed Alikhan @happykhan.mstdn.science.ap.brid.gy · 11/08/2026Howdy, In my spare time I have been working on a modern web version of BRIG, and it is now in a state fit for public consumption. Please share with your team + students. And If they have feedback they can reach me on email. brigx.genomicx.org BRIGX is a modern implementation of BRIG […]mstdn.scienceOriginal post on mstdn.science 0148
Reposted by Yu Wan 万宇Colin Carlson @colincarlson.bsky.social · 10/08/2026I wrote about a reason not to use generative AI in your writing that I haven't seen anyone talking about. Once I realized this, banning GenAI in our lab's writing became a no-brainer. Feel free to share, I think this is probably useful especially for trainees: www.carlsonlab.bio/thoughts/the...carlsonlab.bioThe only reason you’ll ever need not to write with AI — The Carlson LabOver the last year, our lab has been developing a policy on AI use. To do this, we did three main things: We read a lot of academic publications and tech news. We set up an #ai channel on our la... 351562633
Yu Wan 万宇 @wanyuac.bsky.social · 10/08/2026I am pleased to share our study of Pseudomonas aeruginosa isolates from patient and water samples in a large tertiary paediatric hospital over eight years, revealing persistence of this opportunistic pathogen in the hospital's water infrastructure. www.journalofhospitalinfection.com/article/S019...journalofhospitalinfection.comRetrospective analysis of clinical and environmental genotyping reveals persistence of Pseudomonas aeruginosa in the water infrastructure of a large tertiary children’s hospital in EnglandPseudomonas aeruginosa is a major cause of healthcare-associated infections in paediatric settings, where its persistence in hospital water infrastructure poses a particular risk to neonates and immun... 101
Yu Wan 万宇 @wanyuac.bsky.social · 08/08/2026I am delighted to share this national roadmap to implement pathogen whole-genome sequencing for optimising infection prevention and control in the UK. In this paper, we summarise challenges and possible solutions for implementation, proposing a genomic framework. www.thelancet.com/journals/lan...thelancet.comFrom potential to practice: a UK national roadmap to implement pathogen whole-genome sequencing in infection prevention and controlWhole-genome sequencing has substantially advanced the understanding of infection transmission but remains underused in everyday infection prevention and control. The UK pioneered genomic medicine thr... 051
Reposted by Yu Wan 万宇George Bouras @gbouras13.bsky.social · 07/08/2026If you are looking for web-based phage annotation, phage-annotation.org is live. Upload a genome to run Pharokka, Phold and Phynteny sequentially (see our recent protocols paper doi.org/10.1002/cpz1...). If you have feedback, please reach out Thanks to @ardc.edu.au for making this possible!phage-annotation.orgPhage Annotation Server -- phage genome annotationFree automated phage genome annotation -- pharokka, phold and phynteny in one pipeline. 46130
Reposted by Yu Wan 万宇Justice Of Toren One Var @jyn.dev · 05/08/2026i'm really proud of this policy. it's not perfect, but i think it's close to the best that was possible given all the constraints. i'm excited that this will make things easier for mods and reviewers, and hopeful that it will spark change in Rust's governance. blog.rust-lang.org/inside-rust/...blog.rust-lang.orgrust-lang/rust is adopting an LLM policy | Inside Rust BlogWant to follow along with Rust development? Curious how you might get involved? Take a look! 1016724
Reposted by Yu Wan 万宇Vaughn Cooper @vscooper.micropopbio.org · 26/07/2026The major phenotype is tolerance, not resistance, but it's broad: a mutation selected by one drug protects against totally different classes, because it isn't targeting the drug, it's targeting the crisis the drug causes. Thanks to Ralph Isberg and lab for many contributions along the way 1146
Reposted by Yu Wan 万宇James McInerney @jomcinerney.bsky.social · 24/07/2026Take a few minutes to read. This is the next in my series about what we learn from evolutionary biology. Free to read, as always. open.substack.com/pub/profmcin... 0296
Reposted by Yu Wan 万宇Healthcare Infection Society @hisinfection.bsky.social · 16/07/2026🧬 Thank you to everyone who joined the #GENOTIPE Strategic Workshop in London this week It was great to bring together colleagues from clinical services, academia and public health organisations across the UK to discuss how pathogen genomics can be embedded in routine IPC practice #Pathogenomics 011
Reposted by Yu Wan 万宇Microbiology Society @microbiologysociety.org · 18/07/2026Abstract submissions are open for our EON Winter Conference. Join us virtually on 21 Oct 2026 to explore innovation, collaboration & connectivity in microbiology. This event is free for members. Submit here: microb.io/44ACd0l. #Microbiology #SciComm #EON 🔬🌍 011
Yu Wan 万宇 @wanyuac.bsky.social · 02/07/2026Although I always believe reviewers need to be acknowledged for their contribution, this paid peer review mode would increase the publishing charge significantly if a publisher expects to cover the reviewer cost without compromising their commercial interest. www.nature.com/articles/d41...nature.comWhy paying peer reviewers works, according to a journal’s editor-in-chiefA biology journal that paid peer reviewers found that the approach cut the time to a first editorial decision by 85% and maintained high-quality reviews. 000
Reposted by Yu Wan 万宇CAMO-Net @camo-net.bsky.social · 02/07/2026Strengthening AMR research through global collaboration A new CAMO-Net publication has captured the impact of a major training and capacity strengthening programme that supported researchers across 13 institutions in 11 countries....camonet.orgStrengthening AMR research through global collaborationA new CAMO-Net publication has captured the impact of a major training and capacity strengthening programme that supported researchers across 13 institutions in 11 countries. Published in Wellcome Open Research, the article describes how CAMO-Net’s Training and Capacity Strengthening Programme was developed and implemented between April 2024 and March 2026. Led by the Central Training Hub at the Infectious Diseases Institute… 001
Reposted by Yu Wan 万宇Sarah Bagby @scbagby.bsky.social · 29/06/2026Out today in Nature Microbiology: a paper that started in 2021 with an email from @sullivan-lab.bsky.social. Subject line: "Crazy ideas". www.nature.com/articles/s41... 1/23 37533
Reposted by Yu Wan 万宇Satoshi Kawato 川戸智 @kawatosatoshi.bsky.social · 27/06/2026#gbdraw v0.12.1 is now live with a massive update! Powerful new features are now available in your local environment: You can now generate circular comparisons (homology rings) and interactive SVG files directly on your machine 🧬 #bioinformatics #genomics 2104
Reposted by Yu Wan 万宇Shane Mulligan @shanem-editor.bsky.social · 18/06/2026What a brilliant resource! Readers can help secure the future of the Biodiversity Heritage Library, and keep its collections free and open to the world, via the Donate button at biodiversitylibrary.org.biodiversitylibrary.org 098
Reposted by Yu Wan 万宇Martin @concretebadger.bsky.social · 16/06/2026Why does it bother me when a manager or the CEO of my employer boasts about using Copilot to write their emails? This. This is why 4461192471
Reposted by Yu Wan 万宇Michael Okun @michael-okun.bsky.social · 10/06/2026I’ve officially resigned as Associate Editor for Frontiers in Systems Neuroscience. It used to be a reputable journal, but became a case study in how forced automation destroys academic integrity. 👇 5435871430
Reposted by Yu Wan 万宇Paul Rainey @paulbrainey.bsky.social · 09/06/2026Our piece about academic renewal is now out in the Times Higher Education. It deals with a familiar topic on which there have been multiple high-level declarations. We need to move beyond the symbolic. Early career researchers, pls read + ask questions! www.timeshighereducation.com/depth/academ...timeshighereducation.comAcademic renewal needs pressure from below and responsibility from aboveHigh-level declarations pledging not to misuse metrics in research assessment are important, but they are far from enough. Senior academics, in particular, must use their influence to ensure instituti... 097
Reposted by Yu Wan 万宇Sasha Gusev @sashagusevposts.bsky.social · 07/06/2026I wrote about AI in academia. "PhD-level thinking", LLM bias, grunt work, alignment, AGI, data center water use, AI politics -- something for everyone.open.substack.comThoughts on AI in academiaPhD-level thinking, LLM bias, alignment, AGI, data centers, and AI politics 59336
Reposted by Yu Wan 万宇STCmicrobeblog @stcmicrobeblog.bsky.social · 07/06/2026those who enjoyed our story of 𝘐. 𝘤𝘢𝘴𝘤𝘢𝘥𝘦𝘯𝘴𝘪𝘴, which was found in Hot Springs Creek in Lassen Volcanic National Park, can prepeare for an exciting continuation! no spoiler here, but 𝘍𝘶𝘮𝘢𝘳𝘰𝘭𝘢𝘮𝘰𝘦𝘣𝘢 cousins were now found at an, well... unexpected locaction. read below👇 #ProtistsOnSkysmallthingsconsidered.blogSome like it hot...by Christoph — ...and feel right at home in a tributary of Hot Springs Creek in LVNP (California, USA), where temperatures range between 49 °C and 65 °C. You are now going to learn a little bit ab… 2217
Reposted by Yu Wan 万宇Paloma Rodera @palomarodera.bsky.social · 19/05/2026New paper out! 🔈 Genomic Characterization of the RyC collection: 50 Multidrug Resistant Clinical Isolates of Escherichia coli and Klebsiella spp. 50 MDR gut isolates, 2 sequencing platforms, 4 “omes,” and 1 mission: provide a resource to decode AMR and MGE dynamics www.biorxiv.org/content/10.6...biorxiv.org 33018
Reposted by Yu Wan 万宇Heng Li @lh3lh3.bsky.social · 30/05/2026Jeremy Wang developed rammap, a minimap2 rewrite in Rust. It achieves comparable or better performance than minimap2 and produces identical output to minimap2. During rewrite, Jeremy found two long-existing bugs in minimap2 which are fixed in v2.31. www.biorxiv.org/content/10.6...biorxiv.org 310944
Reposted by Yu Wan 万宇sylvain Brisse @sylvainbrisse.bsky.social · 04/06/2026It's out! The LIN code approach for genomic taxonomy of microbial strains and its applications in genomic epidemiology journals.plos.org/plosbiology/...journals.plos.orgLife Identification Numbers: A strain nomenclature approach to aid epidemiological surveillance of bacterial pathogensUnified bacterial strain taxonomies are needed for coherent communication of findings in microbiological research. This Essay provides an overview of a novel bacterial strain taxonomy and describes ho... 24624
Reposted by Yu Wan 万宇Onisillos @onisillos.bsky.social · 19/05/2026"In the past, research was often carried out by people working alone or in groups of two or three. In these circumstances, it seems reasonable to expect each author to take responsibility for the whole." I still expect every author to take responsibility. theconversation.com/a-key-scienc...theconversation.comA key science publishing platform is cracking down on AI slopAI infractions could result in a year-long ban from the arXiv system, which is an essential communication channel in many fields of research. 184
Reposted by Yu Wan 万宇Carolyn Bertozzi @carolynbertozzi.bskyverified.social · 26/05/2026“Academic science is not only about productivity, it is also about deep understanding, exploring creative solutions and training critical thinkers to be the next generation of researchers.” www.nature.com/articles/d41...nature.comThe uncritical adoption of AI in science is alarming — we urgently need guard railsArtificial intelligence is rapidly accelerating scientific output, but risks narrowing inquiry, weakening judgement and undermining how scientists are trained. 114464
Reposted by Yu Wan 万宇Melanie Mitchell @melaniemitchell.bsky.social · 21/05/2026"Science is not simply a sequence of tasks that can be optimized....The scientific system thrives on inefficiency: redundant efforts, failed attempts, and divergent paths. These are not costs to be eliminated but sources of discovery." Excellent essay! ⬇️ www.science.org/doi/10.1126/...science.orgProgression without progressProgress in the use of artificial intelligence (AI) to advance scientific discovery has made it increasingly realistic to envision automated “end-to-end science” (ETES) systems: integrated pipelines t... 1421150
Yu Wan 万宇 @wanyuac.bsky.social · 18/05/2026Our report on a KPC157-producing K. pneumoniae clinical isolate resistant to meropenem-vaborbactam, imipenem-relebactam and other antimicrobials has been published. We established IS-mediated signal-peptide disruption of OmpK36 as a mechanism to reduce β-lactam susceptibility doi.org/10.1186/s128...link.springer.comGenomic and molecular characterisation of a KPC-producing Klebsiella pneumoniae clinical isolate resistant to meropenem-vaborbactam, imipenem-relebactam, and ceftazidime-avibactam - BMC Genomic DataBackground Resistance to carbapenems and third-generation cephalosporins is increasing in Klebsiella pneumoniae globally, restricting therapeutic options. The β-lactam/β-lactamase inhibitor combinatio... 221
Reposted by Yu Wan 万宇A. Murat Eren (Meren) @merenbey.bsky.social · 17/04/2026This is from 7 years ago (merenlab.org/2019/02/24/f...). We are talking about the same things today. We will be talking about the same things 7 years from now. There is no one to blame for this apart from ourselves. I find it very depressing. 12711
Yu Wan 万宇 @wanyuac.bsky.social · 16/05/2026Fabulous! Will look for it when I walk through Liverpool's Bold Street next time. 130
Reposted by Yu Wan 万宇TARGetAMR @target-amr.bsky.social · 14/05/2026🌟Great start to #TARGetAMR26! 🎙️Today we heard an inspiring keynote, insightful talks and fantastic discussions on AMR genomics Plus our Co-Directors @wvschaik.bsky.social @ksbakes.bsky.social unveiled: 🚀Launch of our Flexible Funding Initiative 📚Debut of the TARGetAMR comic ⌛️We can't wait for Day 2! 065
Reposted by Yu Wan 万宇Em Stevens @emstevens93.bsky.social · 12/05/2026I'm currently advertising a PhD position in my lab, to study the transition from commensal to pathogen in Staphylococcus aureus. Details available here, please share! www.keele.ac.uk/research/pos...keele.ac.ukFacultystudentshipinSchoolofLifeSciences 02025
Yu Wan 万宇 @wanyuac.bsky.social · 27/01/2026This report on outbreaks of Burkholderia cepacia complex in the UK and Ireland between 2010 and 2023 has become open access: doi.org/10.1017/ice....doi.orgTwo concurrent nationwide healthcare-associated outbreaks of Burkholderia cepacia complex linked to product contamination, UK and Ireland, 2010–2023 | Infection Control & Hospital Epidemiology | C...Two concurrent nationwide healthcare-associated outbreaks of Burkholderia cepacia complex linked to product contamination, UK and Ireland, 2010–2023 - Volume 46 Issue 10 021