Kieran Lamb
@Kieran12Lamb
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🏴Postdoc @CVRinfo 📊Viral mutational signatures 🧬Protein language models
Glasgow
Joined September 2012
Our new preprint showing how protein language models (PLMs) can help us understand viral proteins is now available! We used ESM-2 to investigate what PLMs know about the SARS-CoV-2 spike protein from a single sequence to evolutionary trajectories. https://t.co/YvNR4sf9jC
biorxiv.org
Protein language models (PLMs) capture features of protein three-dimensional structure from amino acid sequences alone, without requiring multiple sequence alignments (MSA). The concepts of grammar...
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Guess the news is officially out! Extremely excited to announce that I will be starting my own laboratory at Institut Pasteur @institutpasteur this coming spring! Slight change to my office window view from Tokyo Tower🗼 to the Tour Eiffel. 🇫🇷
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Scientists @UofGlasgow have harnessed a powerful supercomputer, normally used to study the universe, to develop a new machine learning model which can help translate the language of proteins. Read more about the new @NatureComms study ➡️ https://t.co/kLWGk9J3Bg
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Fantastic work from @DanLiu_ out now in @NatureComms!
Our PLM-interact is out in @NatureComms! We show that jointly encoding protein pairs using protein language models improves protein–protein interaction prediction performance and enables fine-tuning to predict mutation effects in human PPIs. https://t.co/9unrZqULUS
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New exciting resource published!! The Viro3D paper is out, describing our comprehensive database of predicted virus protein structures! 💻🧬 Work with @CVRinfo 's Ulad Litvin, Joe Grove, Alex Jack, @robertson_lab and @blJOg
https://t.co/oQ0y5pDLcd
embopress.org
imageimageViro3D provides proteome-level, high confidence AI-protein structure predictions for >4,400 viruses, allowing mapping of form and function across the human and animal virosphere. Viro3D is...
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Proud to announce my first publication is out in @PLOSPathogens ! Huge thanks to my co-first author Wael, @brennanlab, and @castello_lab. The paper explores how tick RNA-binding proteins respond to UUKV infection, you can find the paper here https://t.co/HNsotnsKWK
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New preprint available! We introduced PLANT, an AI predicting the antigenicity of seasonal influenza viruses based on HA sequences. PLANT enables the direct creation of antigenic maps from sequences, highlighting differences between virus strains. 1/n https://t.co/Kp0i8vSIPd
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👏 Massive well done to @Kieran12Lamb for presenting at AI x BIO by Wellcome Connecting Science @eventsWCS The conference showcased advances in artificial intelligence in biology. https://t.co/j4xhKJhyLW
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Last week we hosted the 2nd CompBio Hackathon! Participants picked one of 4 projects before implementing solutions across 3 days. It was great to see those interdisciplinary collaborations! We would like to thank @UofG_CDSAI, @UofGlasgow and @MVLS_NERD for providing the funding.
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🚨🔎 Out now in @PLOSPathogens! 🔎🚨 This project has taken us @CVRinfo @UofGMVLS on a wild and wonderful journey. I am excited to share our story of how influenza A viruses (IAVs) exploit cell death to facilitate its covert spread. N/1 https://t.co/tA89zMQMAH
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Our study on CoVFit, an AI that predicts the fitness of SARS-CoV-2 from spike protein sequences, is now out in Nat Commun! CoVFit helps uncover viral evolutionary mechanisms, detect emerging variants, and forecast viral evolution! https://t.co/6dIASmxaB5
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Sooo happy to finally have this one published!! (3 years in the making… 👀) A comprehensive investigation into the recency and geographical origins of both SARS-CoVs that spilled to humans in the past few decades, now in @CellCellPress
cell.com
Recombination-aware evolutionary analyses of the entire genomes of SARS-CoV-1-like and SARS-CoV-2-like viruses indicate that SARS-CoV-1 and SARS-CoV-2 descend from bat coronaviruses that circulated...
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I can't believe my second first-author paper has been published today, on my actual birthday! Double celebrations tonight 🥳🥳 Available to read here: https://t.co/IOxvwvhudA
journals.asm.org
Since SARS-CoV-2 first emerged in 2019, it has continued to evolve, occasionally generating variants of concern. One of the ways that SARS-CoV-2 can evolve is through recombination, where genetic...
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Recently we have been doing lots of work on how modern #AI methods can be applied to studying virus evolution, so it felt like great timing to write a perspective about it! Very happy to see our paper as editor's pick in @ASMicrobiology JVI!🥳🥳 https://t.co/Du4fyC8TGp
journals.asm.org
Genomic pathogen sequencing during the COVID-19 pandemic highlighted the critical role of surveillance in understanding the persistence of SARS-CoV-2 in the human population despite high levels of...
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New paper alert!! 🚨🚨 And it's on the coolest (and most mysterious 🕵️) group of viruses I've worked on so far! With @SejModha we uncovered >800 new anellovirus genomes from human metagenomes and looked for clues on these tiny, elusive viruses biology! https://t.co/7a2RRwvZ7P
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Exciting to see our recent work mentioned in @Nature today! https://t.co/phxLSzRzN5
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Big news: We just released PLM-interact, a tool for predicting protein-protein interactions, showing a 16-28% improvement over previous methods and even predicting mutation effects on interactions. Here’s the story behind this journey. 🧵👇
🚀 Our new preprint is out! We show that protein language models can predict protein-protein interactions by jointly encoding protein pairs, leading to significant improvements in PPI prediction. https://t.co/i81iRVZAls
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🚀 Our new preprint is out! We show that protein language models can predict protein-protein interactions by jointly encoding protein pairs, leading to significant improvements in PPI prediction. https://t.co/i81iRVZAls
biorxiv.org
Computational prediction of protein structure from amino acid sequences alone has been achieved with unprecedented accuracy, yet the prediction of protein-protein interactions (PPIs) remains an...
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New preprint on @DanLiu_'s @viroinf PhD research in collaboration with @keyuan1, @ir_glasgow, @DiRAC_HPC and others: PLM-interact: extending protein language models to predict protein-protein interactions https://t.co/CnhEVQ8NdH
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[REPOST] 📢 Calling all young virologists! Join us as a speaker or moderator for the year 2025! Share your insights, present recent research (whether you’re a first author, or just passionate about a topic), and connect with fellow virologists! See the poster for details! ⬇️
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Excited to announce our October event all about careers with exciting talks from @LisaHopcroft and @SejModha Join us on the 24th of October, 3pm at 422/423 @GlasgowCS
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