A rare new ACGT blog post from me inspired by a recent podcast episode by @andrewjpage.bsky.social and Kevin Libuit: www.acgt.me/blog/2025/7/... #bioinformatics

Thank you and congratulations to the organisers at @eventswcs.bsky.social for a successful Applied Bioinformatics & Public Health Microbiology conference 👏 Among other invited thought-leaders, our CTO, @andrewjpage.bsky.social, shared some of his expertise in the field of Microbial Bioinformatics.

We have arrived for the Edinburgh Endometrial Cancer Meeting where we'll be discussing Endometrial Cancer from varied viewpoints, including how our own improved diagnosics aid development of clear, actionable ways forward. #EndometrialCancer #NHS #Diagnostics #WomensHealth #CancerResearch

Day 2 of the 10th Applied Bioinformatics and Public Health Microbiology conference sees our CTO, Prof. @andrewjpage.bsky.social invited to speak on the the emergence of the Microbial Bioinformatics field at the Wellcome Genome Campus in Cambridge. bit.ly/4kyD5so @eventswcs.bsky.social

Absolutely thrilled to announce the launch of ARTIC2 - a £5.5M 5 year project funded by @wellcometrust.bsky.social to build on the ARTIC approach of low-cost, globally accessible genome sequencing for surveillance of outbreaks, epidemics and endemic diseases: www.birmingham.ac.uk/news/2025/am...

@sundermannaj.bsky.social's work highlights the undeniable impacts of pathogen genomics in healthcare. But pathogen genomics in healthcare remains the exception, not the norm. We spent an hour exploring the challenges and potential solutions to more broad adoption. www.youtube.com/watch?v=XDLo...

We are very pleased to welcome our new CTO, @andrewjpage.bsky.social, to the team. Having held a number of senior positions, authored >150 scientific publications and led development of widely used tools, Prof. Page brings a wealth of experience to the role and we look forward to working together!

Its a glorious day for my 43rd birthday 🎂. Now one week into my new job at @originsciences.bsky.social as their new Chief Technology Officer and loving every minute so far.

Huge disparity in genomic data: We support all efforts to increase the genomic surveillance of pathogens on a global scale as dynamics differ locally: what happens in one place does not translate to another and high-risk clones can emerge anywhere […] [Original post on mstdn.science]

A #protip for job hunters: if you are going to use ChatGPT to write your CV, please read the output and replace the bit where it says '[Add your headline or summary]' with some text.

I get to do real science today looking at a mystery bug that appears to be a novel species! These are the best of times.

Genotype D1.1 of H5N1 confirmed in Nevada cattle, which is the one circulating in birds and not B3.13, causing the wider cattle epizootic in the U.S. In other words, this is a second observed jump from birds into cows. Keep rolling the dice, shall we? www.feedstuffs.com/agribusiness...

Huge shout out to @lskatz.bsky.social et al on the recent Micro Resource Announcement for Kalamari! @andrewjpage.bsky.social and I highlight Kalamari's utility in pathogen genomics: www.youtube.com/watch?v=KDzY... Paper here: journals.asm.org/doi/epub/10.... & Github: github.com/lskatz/Kalam...

It has been brought to my attention that my article has been censored to exclude certain terms: asm.org/Articles/202... web.archive.org/web/20250114... #MicroSky

A poster presentation with a view last week at the @fogenomics.bsky.social in London! Had a great time speaking about my work on SARS-CoV-2 genomic epidemiology in Norfolk 🧬

It's all gone. They've taken down all the CDC datasets from data.cdc.gov Data that's critical for public health & research. Data paid for by citizens. That the government now censors. "Do not fear those who tell the truth. Fear those who try to hide it. They are willing to sacrifice other things."

🚨 New research alert! One of our team members @andrewjpage.bsky.social is an author on this recent American Society for Microbiology Resource Announcements paper. You can find it here: journals.asm.org/doi/10.1128/... #Microbiology #OpenScience

It’s now live! I’m so excited about this post – I’m recruiting to the new role of Head of Student Library Experience at @lselibrary.bsky.social. Interested? jobs.lse.ac.uk/Vacancies/W/...

At @theiagen.bsky.social we are hiring a fully remote IT/Cloud security operations manager, based in the US. You'll get to work with me in public health and microbial bioinformatics which I find is very personally rewarding! theiagen.pinpointhq.com/en/postings/...

🚨 New paper alert! 🚨 Say hello to Kalamari 🦑—your new go-to resource for genomic epidemiology & pathogen surveillance. 🌍 ✅ Representative genomes ✅ Common contaminants ✅ Custom taxonomy ✅ Open-source tools for easy data access Read it here: journals.asm.org/eprint/JUUNS...

Had a lovely sunrise run with @kevinlibuit.bsky.social in Berkeley, stunning campus

I talked to @meganphillips.bsky.social from Emory on the Micro Binfie podcast about her work on MRSA. The most interesting part of the conversation was on digging into really old research papers, seems to have been a totally different style of debate back then soundcloud.com/microbinfie/...

I co-host The Bioinformatics Lab podcast with @kevinlibuit.bsky.social and the other day we had a great chat about our job hunting experiences, the importance of professional networks and making genuine connections. Its on all the podcasting apps & youtube soundcloud.com/the_bioinfor...

I'm putting together a Microbial Bioinformatics starter pack to help get everyone connected in our community. Let me know if there are any bluesky users to be added and share so that twitter refugees can tune back in to the fantastic world microbes go.bsky.app/3ezLo7e

☣ Part 2 is now live! Come join us in the second half of the discussion of the movie Contagion. 🧬 Here, or wherever you listen to your podcasts. soundcloud.com/microbinfie/...

Ran the Die Hard Christmas half marathon this morning. If you look closely at the medal you can see some movie quotes

Continuing our annual tradition on the Micro Binfie Podcast we watched the movie Contagion and chat about all the science in it. Really great movie. Here's part 1 @lskatz.bsky.social @happykhan.mstdn.science.ap.brid.gy on.soundcloud.com/aWJNKJPEuwzv...

☣️ We're excited that we will have Real Bioinformaticians React to The Movie Contagion! Coming soon to your podcast app or wherever you listen to podcasts. 🧬 @happykhan.mstdn.science.ap.brid.gy @andrewjpage.bsky.social

I was reminiscing about when Kate Winslet visited CDC, and so I went back in my CDC email to 2011. She visited to discuss what being an epidemiologist was like with the famous Anne Shuchat. To my knowledge, she never entered a real BSL4.

Its quite amazing that @kevinlibuit.bsky.social and I are up to 45 episodes on The Bioinformatics Lab Podcast. Here we have a quick chat about MPXV. www.youtube.com/watch?v=KULJ...

We are hiring remote bioinformaticians at @theiagen . If you have a passion for microbial bioinformatics or public health, send your CV to [email protected] . You can be based nearly anywhere but need to be available to work US business hours.

Last few places for the 10th Microbial Bioinformatics Hackathon (in-person and virtual), which will be held just before ASM NGS. Come join us! Registration form: forms.gle/rY7V3UrTNy8t... Date: 10-12 October 2024 Location: Hyatt Regency Bethesda, MD (30 min from ASM conference) Admission: Free

I'm sure the sewerage companies will deny there's any link between these!

Jurassic park 🦖is 30 years old & the science 🧬 is still relevant. For a bit of fun @lskatz.bsky.social @happykhan.x.com & I watched it & comment on all the #science in the movie! 🎙️ soundcloud.com/microbinfie/... #JurassicPark

Campylobacter is one of the most common causes of gastroenteritis. @OzanGundogdu11.x.com and @dutchscientist.bsky.social teach me a bit about the genomics and epidemiology of it on the Bioinformatics Lab Podcast. SC: soundcloud.com/the_bioinfor... YouTube: youtu.be/ZJdhbcnGyw4

🧬 Discover the groundbreaking discussions from the 1st @pha4ge Conference in Cape Town. Kevin shares insights on unifying global genomic surveillance. 🌍 🔊 SoundCloud: soundcloud.com/the_bioinfor... 📺 YouTube: youtu.be/pJoI9ehk7mM #PHA4GE #GlobalHealth #BioinformaticsLabPodcast

The Public Health Alliance for Genomic Epidemiology @pha4ge.x.com is a hyper productive global consortium at the heart of public health genomics. @kevinlibuit.bsky.social and I discuss it on the latest episode of The Bioinformatics Lab. SC: soundcloud.com/the_bioinfor... YT: youtu.be/XgO0U46pAGk

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

ChatGPT imagining bioinformatics!

Mycobacterium taxonomy makes my genomics informed head hurt. @conmeehan.bsky.social please fix it 😉

Unfortunately I wont make the first PHA4GE conference next week in Cape Town, hope its a good meeting. Bonus points if you can guess the conference venue from this Dall-E image

The challenges of buying your own hardware for bioinformatics analysis youtube.com/shorts/eov-P...

I upgraded my Pixel 6 to Android 14 & encountered a bug which reduced my storage from 128 to 4GB. Many others also encountered it & a factory reset is the only solution currently. So be careful upgrading. www.androidpolice.com/android-14-l...

A gnome sequencing lab in action.

Genome sequencing of recent travellers during the pandemic was used to inform quarantine measures in the UK. Listen to this and more on the Bioinformatics Lab podcast. Audio: t.ly/m1-Ey Youtube: youtu.be/oIWtVrQU5-Y

While I was at @TheQuadram.x.com I got to help with a study looking at sepsis in premature babies caused by Staphylococcus capitis, which has just been published. Some awesome @galaxyproject.bsky.social #bioinformatics deployed by Heather Felgate www.microbiologyresearch.org/content/jour...

The balancing act between public health and food safety is very interesting, reducing salt in foods helps the population as a whole by reducing deaths, whilst too little salt in some foods increases the chance of Clostridium botulinum growing and causing botulism.

For the first time ever @kevinlibuit.bsky.social and I meet up in person to record a podcast and discuss what happened at The Global Microbial Identifier Conference in Vancouver, Canada. S Podcast: soundcloud.com/the_bioinfor... Video: youtu.be/h9Fxv919HQw