The 2nd Workshop of the Human RNome Project Consortium took place last week in sunny Toronto 🇨🇦 ☀️, and @clare-r.bsky.social from our team had the pleasure of attending and hearing about the fantastic work happening all over the globe on #RNA modifications.
MADRe: Strain-level metagenomic classification through assembly-driven database reduction doi.org/10.1093/giga... Software: github.com/lbcb-sci/MADRe
AI in biology must be experimentally verifiable, and that requires wet labs. @astar_gis is hiring pre- and postdocs with proven AI knowledge to build foundation models for RNA therapeutics: mRNA vaccines/drugs, gene editing, ribozymes and in vivo CAR-T. Singapore-based. DM me and please repost.
Great video by Full Disclosure, where Loveena Kamath investigates how bad research enters legitimate systems. She even calls a paper mill to buy a scientific paper! With Achal Agrawal, PhD, and myself. "World’s Easiest Fraud, Apparently!" www.youtube.com/watch?v=bYTk...
I Read 126 Research Papers To Expose A Billion Dollar Fraud
YouTube video by Full Disclosure
youtube.com
Singapore is funding a generous Visiting Professorship — I'm recruiting AI researchers (academia or industry, based outside SG) to join @astar-gis.bsky.social for 20% of their time. We're tightly integrating AI with wet-lab experiments for training + validation. Deadline soon. DM me. Please share!
@anthropic.com c is betting biology is AI's next frontier. I agree—but there are two streams: building virtual bioinformaticians that combine existing knowledge & tools, or AI that discovers new biology in close collaboration with wet-lab scientists. Our focus is the latter. 1/3
JOB ALERT! I'm hiring two postdocs in Computational Genomics to join our lab in beautiful Gothenburg, Sweden. Please share and repost! CGRLab.github.io/research/
My secret 4th ALGO paper is out! We show a tight space lower on non-minimal k-perfect hash functions, generalize PtrHash into a non-minimal k-PHF, and then use it to develop a hash set implementation that is up to 1.6x faster than other hash sets! With Stefan {Hermann, Walzer} and Peter Sanders
arXiv cs.DS Data Structures and Algorithms@csds-bot.bsky.social · 4w agoRagnar Groot Koerkamp, Stefan Hermann, Peter Sanders, Stefan Walzer: Non-minimal k-perfect hashing: Tight lower bounds and an application to fast static hash tables https://arxiv.org/abs/2607.07257 https://arxiv.org/pdf/2607.07257 https://arxiv.org/html/2607.07257
Just submitted my PhD thesis on algorithms for fast, large-scale k-mer-based sequence analysis. It's now available to read at phd.martayan.org Take a look and feel free to share! #Bioinformatics #PhDone
Algorithm design and implementation for the scale of sequencing data
phd.martayan.org
Excited to apply AI to real-world biology problems (in vivo CAR-T therapy)? We’re hiring postdocs with strong AI expertise, ideally with publications in top AI conferences/journals. Work includes: • Next-generation RNA LLMs • Post-training methods Apply here: lnkd.in/d6Br2_he Please share!
A*STAR - Agency for Science, Technology and Research hiring AI Scientist - Generative AI Models for the Creation of RNA-Based Drugs (GIS) in Singapore, Singapore | LinkedIn
Posted 9:30:08 AM. Project backgroundMessenger RNA (mRNA)-based therapeutics, including vaccines, represent a…See this and similar jobs on LinkedIn.
lnkd.in
📢 Hiring several postdocs in AI for RNA! Topics: - Explainable RNA LLMs - Optimising coding & non-coding parts of mRNA sequences - RNA 3D structure prediction - RNA–small molecule binding - Agents for RNA biology Strong AI track record needed; biology background a plus, not a must. Please RT 🔁
Great trip to Fukuoka with PacBio! 🚀 Sui Yue is on-site, presenting bambu and representing the lab. Hands-on feedback always welcome — let’s discuss!💡 🔗 GitHub: github.com/GoekeLab/bambu 🔗 GitHub: github.com/GoekeLab/bambu-pipe 📄 Preprint: doi.org/10.1101/2024.12.30.630828
🧬 Join us for the 2nd Singapore RNA Salon! 📅 June 18th, 4–6 PM📍 NTU 3 talks from ECRs covering mitochondrial dsRNA & inflammation, engineered CasRx RNA editing and long-read single-cell & spatial RNA-seq followed by snacks and networking, all are welcome! ⭐ Link & more info in comments
Registration: Singapore RNA Salon: 18th June 16:00 - 18:00, NTU, School of Biological Sciences
form.gov.sg
The new long read cDNA kit by @nanoporetech.com is a major upgrade (and improvement!), substantially increasing read length, with a strong impact on transcript discovery and quantification. We @goekelab.bsky.social have tested this in the beta release, more updates soon #nanoporeconf
🙌 Excited to share Bambu and our findings on the new long-read cDNA kit from Oxford Nanopore Technologies — featured at London Calling 2026. Full story at the RNA 2026 Pre-Meeting Workshop, Montreal! 🇨🇦 @nanoporetech.com @rnasociety.bsky.social #RNA2026 #OxfordNanopore #Bambu
HERRO has been published in @nature.com nature.com/articles/s41.... This achievement is a result of the great work by Dominik Stanojevic, with contributions from Dehui Lin, @sergeynurk.bsky.social, and Paola Florez de Sessions Welcome to the era of high-quality genome assemblies supported by AI.
Telomere-to-Telomere Assembly Using HERRO-Corrected Simplex Nanopore Reads - Nature
Nature - Telomere-to-Telomere Assembly Using HERRO-Corrected Simplex Nanopore Reads
nature.com
Happy to see MADRe published!! MADRe: Strain-level Metagenomic Classification academic.oup.com/gigascience/... Great work @jlipovac.bsky.social
Validate User
academic.oup.com
Josipa Lipovac@jlipovac.bsky.social · 4mo agoFollowing up on this - MADRe is now officially published 🎉 Very grateful for the guidance of @msikic.bsky.social @rvicedomini.bsky.social and Kresimir Krizanovic 🔗 academic.oup.com/gigascience/...
Following up on this - MADRe is now officially published 🎉 Very grateful for the guidance of @msikic.bsky.social @rvicedomini.bsky.social and Kresimir Krizanovic 🔗 academic.oup.com/gigascience/...
Josipa Lipovac@jlipovac.bsky.social · last yr.I am happy to share our new preprint introducing MADRe - a pipeline for Metagenomic Assembly-Driven Database Reduction, enabling accurate and computationally efficient strain-level metagenomic classification. 🔗https://www.biorxiv.org/content/10.1101/2025.05.12.653324v1 1/9
Myloasm, our long-read metagenome assembler, is now published! w/ @mgmarin.bsky.social and @lh3lh3.bsky.social Very rewarding after > a year of development and countless hours thinking about assembly. Thanks to beta testers, Li lab, and reviewers who gave very helpful feedback. rdcu.be/famFj
High-resolution metagenome assembly for modern long reads with myloasm
Nature Biotechnology - A long-read metagenome assembly method recovers circular and complete genomes better than existing tools.
rdcu.be
Nature Biotechnology@natbiotech.nature.com · 4mo agoHigh-resolution metagenome assembly for modern long reads with myloasm - @lh3lh3.bsky.social @jimshaw.bsky.social @danafarber.bsky.social @harvardmed.bsky.social go.nature.com/3PBEwvR
Hiring a PhD student in AI × RNA 🧬 • Predict, generate and optimise RNA 3D structure 📍 Zagreb (EU hub, great quality of life) 🌍 Team across Zagreb & Singapore (visit SG possible) 🧠 CS/math/physics + strong AI (not just prompting) 🧪 Real wet-lab validation of models DM if interested. Share 🙏 1/
Martin Schmitz makes history in the lab! He successfully defended his PhD thesis, "Geometric Deep Learning for Diploid De Novo Genome Assembly," at the National University of Singapore, becoming the very first lab member to complete his doctorate there. Congratulations, Martin!!
Science Has a Major Fraud Problem 'For decades, scientists were above reproach. Not any more. Joe Nocera investigates the murky world of fraudulent research, and the sleuths exposing dishonest science.' @thefp.com www.thefp.com/p/science-ha...
Science Has a Major Fraud Problem
For decades, scientists were above reproach. Not any more. Joe Nocera investigates the murky world of fraudulent research, and the sleuths exposing dishonest science.
thefp.com
This is an important step in the right direction. The methods are improving to start collectively thinking about how we should analyze raw nanopore signals for various new applications that are not possible without signal analysis. Congratulations to the authors!
Mile Sikic@msikic.bsky.social · 5mo agoTransformer-based AI has boosted @nanoporetech.com sequencing accuracy, but at a cost to portability due to GPU demands. Our new work, spearheaded by Sara Bakic, introduces Campolina link.springer.com/article/10.1... to improve nanopore signal segmentation for event-based mappers.
1/ Our paper on Multi-Context Seeds is now out, with @tolyan.bsky.social spearheading the work and contributions from Nicolas and @marcelm.net. We introduce a new seeding concept that improves read alignment accuracy while maintaining speed. link.springer.com/article/10.1...
Multi-context seeds enable fast and high-accuracy read mapping - Genome Biology
A key step in sequence similarity search is to identify shared seeds between a query and a reference sequence. A well-known tradeoff is that longer seeds offer fast searches but reduce sensitivity in ...
link.springer.com
Transformer-based AI has boosted @nanoporetech.com sequencing accuracy, but at a cost to portability due to GPU demands. Our new work, spearheaded by Sara Bakic, introduces Campolina link.springer.com/article/10.1... to improve nanopore signal segmentation for event-based mappers.
Campolina: a deep neural framework for accurate segmentation of nanopore signals - Genome Biology
Nanopore sequencing enables real-time, long-read analysis by processing raw signals as they are produced. A key step, segmentation of signals into events, is typically handled algorithmically, struggl...
link.springer.com
🧬 Hiring Postdocs at @astar_gis ! We need Computer Scientists and Computational Biologists to develop novel algorithms for de novo assembly of cancer genomes or to help us reconstruct them. Experience in sequence alignment/assembly algorithms or assembly of complex genomes required Please RT! 🔄
Join us this week for the RNA Salon at the Genome Institute of Singapore! Speakers from @boxiangliu.bsky.social (NUS) Dahai Luo and @msikic.bsky.social labs. Thanks for support by @rnasociety.bsky.social!
A*STAR Genome Institute of Singapore (A*STAR GIS)@astar-gis.bsky.social · 6mo agoRNA Salon Events 🧬 Join us for our first RNA Salon on February 12th, 2026, 4-6pm at the Genome Institute of Singapore. For more information, please refer to www.a-star.edu.sg/gis/news-eve... For registration: form.gov.sg/695dc837c1a7... #Genomics #RNA #Genomics #RNA
We are hiring a PhD student at the University of Zagreb, FER for a project aimed at developing AI models to predict RNA structure and generate new RNA molecules. We are looking for outstanding undergraduates in computer science, physics, or mathematics with demonstrated experience in AI. 1/n
1/ We’re hiring PIs in AI × Biology The @astar-gis.bsky.social Genome Institute of Singapore (GIS) is expanding its AI & Computation domain and recruiting junior & senior PIs.
![Comic. [chessboard with red dotted line and flag at second line. Highlighted rook is positioned next to King behind the red line.] [caption] I thought I had checkmate, but I didn’t realize my rook was offside.](https://cdn.bsky.app/img/feed_thumbnail/plain/did:plc:cz73r7iyiqn26upot4jtjdhk/bafkreif4par7z6yterrvkhvlnemtc37rpb4yvretekqzpqnxl7gjio7fju)