Excited to share our latest preprint on agtools, an open-source Python framework for analysing and manipulating assembly graphs. (1/n) www.biorxiv.org/content/10.1... #Bioinformatics #genomics #assembly #assemblygraphs #software
agtools: a software framework to manipulate assembly graphs
Assembly graphs are a fundamental data structure used by genome and metagenome assemblers to represent sequences and their overlap information, facilitating the assembler to construct longer genomic f...
biorxiv.org
Stoked to finally have a preprint out for Phold, our tool that uses protein structural information to enhance phage genome annotation #phagesky 1/n www.biorxiv.org/content/10.1...
Protein Structure Informed Bacteriophage Genome Annotation with Phold
Bacteriophage (phage) genome annotation is essential for understanding their functional potential and suitability for use as therapeutic agents. Here we introduce Phold, an annotation framework utilis...
biorxiv.org
For any hoping to submit workshop proposals for ABACBS25/BiocAsia, EOIs close today. We understand how busy everyone is, so if your EOI is a day or so late, it'll still be considered. We've already had some fantastic proposals too, so it looks like being a really beneficial couple of days. 🧬 🖥️
Workshops 2025
abacbs.org
🌟 Exciting news! We’re launching three fully-funded postdoc positions for "New Horizons for Synthetic Phages” Join us in tackling antimicrobial resistance with cutting-edge synthetic biology + AI bioinformatics. Based at Flinders Uni in vibrant Adelaide. 👇 Read on for details! #Phage
🚨 New preprint 🚨 My phage annotation tool, Phynteny, finally has a preprint and a brand new version powered by a cool AI transformer architecture and protein language models! #phagesky www.biorxiv.org/content/10.1...
Synteny-aware functional annotation of bacteriophage genomes with Phynteny
Accurate genome annotation is fundamental to decoding viral diversity and understanding bacteriophage biology; yet, the majority of bacteriophage genes remain functionally uncharacterised. Bacteriopha...
biorxiv.org
Fold first, ask later: structure-informed function annotation of Pseudomonas phage proteins Structural predictions to improve #phage genome annotation! @hannelorelongin.bsky.social @gbouras13.bsky.social y.social @susiegriggo.bsky.social @veravannoort.bsky.social www.biorxiv.org/content/10.1...
Fold first, ask later: structure-informed function annotation of Pseudomonas phage proteins
Phages, the viruses of bacteria, harbor an incredibly diverse repertoire of proteins capable of manipulating their bacterial hosts, inspiring many medical and biotechnological applications. However, t...
biorxiv.org
🚨 Reminder: Key #ABACBS2025 deadlines are fast approaching in the next few weeks! 🚨 📝 Abstract submissions 🎤 EOI to host a Workshop 🏆 Award nominations All now open! Full details + dates here 👉 www.abacbs.org/abacbs2025 #Bioinformatics #ABACBS #COMBINE2025
ABACBS 2025 Conference
Adelaide, South Australia. Nov. 24-
abacbs.org
The 2025 South Australian Internship in Indigenous Genomics is open 🎉 EOI for Indigenous Australian students, researchers & professionals for a 12- week paid internship 👇 sahmri.org.au/careers-and-... #GenomicsEquality #IndigenizeScience #IndigenousGenomics
Expressions of Interest Paid Internship in Indigenous Genomics
sahmri.org.au
PhD opportunities at @flindersuniversity.bsky.social in Adelaide, Australia's most liveable city, to study genetics in #phage We will also have genetics #postdoc positions too! #microsky #phagesky www.linkedin.com/pulse/phd-pr...
PhD Project: Discovering Novel Mechanisms of Phage Genome Evolution
We are looking for an awesome PhD student to join our research team to investigate how bacteriophages (phages) generate targeted mutations that enable them to evolve and infect new bacterial hosts. Yo...
linkedin.com
We made structural predictions of representatives of each #PHROG from #phage genomes, and put the whole lot online. You can browse through montages or go to your favourite phrog directly and download its PDB. 💻🧬 #phagesky linsalrob.github.io/PHROG_struct...
PHROG Structure Gallery
linsalrob.github.io
Finally joined Bluesky! Follow along to stay connected with ABACBS. Keep an eye out in the coming days, we’ll be releasing more details for 2025 conference, including opening abstract submissions and announcing invited speakers! www.abacbs.org/abacbs2025
ABACBS 2025 Conference
Adelaide, South Australia. Nov. 24-
abacbs.org
Delighted our study (7+ years in the making) is out today in Nature. In a nutshell, 48 hours of antibiotics in week 1 led to impaired vaccine responses up to 15 months later in infants. We show (in-vivo) a probiotic can fix it #microbiome #science #immunology www.nature.com/articles/s41...
Bifidobacteria support optimal infant vaccine responses - Nature
Neonatal antibiotic use is shown to reduce immune response to infant vaccines, accompanied by reduced abundance of Bifidobacteria in the gut microbiota, with experiments in mice indicating that probio...
nature.com
🎥 Supercomputing vs Superbugs 💻🦠 Antibiotic resistance is a growing threat, but Sphae—a genomic toolkit developed with help from Pawsey Supercomputing—helps scientists discover new bacteriophage therapies. Learn how this powerful tool is transforming health: hubs.ly/Q03c_VC70 #PhageTherapy #Setonix
Excited to see our tool, Sphae, gaining attention! #PhageTherapy #Bioinformatics #Sphae #phagesky
Australian Research Data Commons (ARDC)@ardc.edu.au · last yr.💻National digital research infrastructure is powering the fight against superbugs!🦠 Sphae is a free online genomic toolkit to rapidly evaluate phage therapy, supported by ARDC, @pawseycentre.bsky.social & @nci-australia.bsky.social 🔗 ardc.edu.au/article/phag... #NCRISimpact
Check out this list of awesome #virome tools and be sure to add yours! github.com/shandley/awe... #phagesky #microsky
GitHub - shandley/awesome-virome: A listing of software, tools and databases useful for virome analysis
A listing of software, tools and databases useful for virome analysis - shandley/awesome-virome
github.com
Helping viruses deliver a knockout blow to killer bacterial infections! Great work by @npbhavya.bsky.social phys.org/news/2025-02...
Helping viruses deliver a knockout blow to killer bacterial infections
In the face of rising concerns about antibiotic resistant infections, an international group of microbial experts have launched a powerful and flexible free online genomic toolkit for more rapid devel...
phys.org
New paper out! I'm excited to share our latest work in Bioinformatics Advances! We've developed Sphae, a bioinformatics pipeline to evaluate phage therapeutic potential. doi.org/10.1093/bioa... Try it here: github.com/linsalrob/sp... #PhageTherapy #AMR #Bioinformatics #phagesky
GitHub - linsalrob/sphae: Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!
Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing! - linsalrob/sphae
github.com
Trying to purify and sequence #phage for phage therapy? Try #sphae a new approach to identify if your phage could be useful for treatment #phagesky
bioRxiv Bioinfo@biorxiv-bioinfo.bsky.social · 2y agoSphae: An automated toolkit for predicting phage therapy candidates from sequencing data https://www.biorxiv.org/content/10.1101/2024.11.18.624194v1
Honoured to have been voted as President-elect of the International Society for the Viruses of Microbes (ISVM) and excited to work with the Executive Board over the next few years #phagesky phagesociety.org
ISVM – International Society for Viruses of Microorganisms
phagesociety.org
The final talk at the #combine24 protein structure session on predicting the effect of mutations on protein structures by Emily Zhou
@gbouras13.bsky.social presenting his tool PHOLD to use protein structure information for assigning a function to unknown proteins #COMBINE24
@susiegriggo.bsky.social introducing her new tool PHLEGM to build multimeter of phage proteins #COMBINE24
Here is Hybracter, our tool for generating automated hybrid & long-read-only bacterial genome assemblies. Github: github.com/gbouras13/hy... Docs: hybracter.readthedocs.io/en/latest/ Preprint: www.biorxiv.org/content/10.1... @npbhavya.bsky.social @linsalrob.bsky.social #Microsky
🎉 Excited to introduce #SPHAE! Our new workflow for phage genome analysis generates complete genomes, annotations, & comprehensive summaries of genome features. Check it out: github.com/linsalrob/sphae #phagesky @linsalrob.bsky.social
GitHub - linsalrob/sphae: NEW!!! Phage annotations and predictions. A spae is a prediction or forete...
NEW!!! Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing! - GitHub - linsalrob/sphae: NEW!!! Phage annotations and prediction...
github.com
Attending #COMBINE23 and #abacbs23 symposium in Brisbane this week. A special thanks to COMBINE committee and South Australian immunoGENomics Cancer Institute for the student travel award.
#MicroSky #phagesky abstract submission for #VoM2024 is open & guest for live #TWiV This Week in Virology @microbetv.bsky.social #podcast will be chosen from abstracts submitted by Feb 16 at www.vom2024.org/cfa. Time to get writing.
CFA - Viruses of Microbes 2024 Meeting - Cairns Convention Centre
vom2024.org
Viruses of Microbes 2024@vom2024.bsky.social · 3y ago✨#VoM2024 KEY DATES ✨ Head over to our website to check out the key dates and add them to your calendar 📅 Time to start thinking about your #abstract submissions! vom2024.org/key-dates
"Virus discovery is new ammunition for tackling 'germ warfare' in humans" work from @npbhavya.bsky.social #phagesky #microsky phys.org/news/2023-11...
Virus discovery is new ammunition for tackling 'germ warfare' in humans
An international research team has identified potential new 'weapons' in the 'arms race' for new antibiotics and possible future therapies for a more balanced gut microbiome and human health.
phys.org
Not enough people know about bioicons.com Open source vector graphics. Free alternatives to BioRender.
