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Alex Bateman

@alexbateman1.bsky.social

Head of Protein Sequence Resources at EMBL-EBI.

26 Posts1316 Follower195 Folgt
Paul Gardner@ppgardne.bsky.social · 12mo ago

www.nature.com/articles/s41... From remote matches to @rfamdb.bsky.social models to the discovery of novel *vertebrate* riboswitches!

Guanidine aptamers are present in vertebrate RNAs associated with calcium signaling and neuromuscular function - Nature Communications

150 years ago, guanidine was found to affect muscle function via unknown mechanisms. Here, Kavita et al. provide evidence that guanine-sensing RNAs are present in many eukaryotic transcripts relevant ...

nature.com

Aude Bernheim@audeber.bsky.social · last yr.

Beyond homology: This mind blowing work demonstrates the power of genomics driven analogy for discovery in the era of structure predictions. The diversity of defense systems emerged thx to "guilt by association approaches". New analogies to uncover molecular novelties 👇. 👏 Nitzan, Rotem & al.

Nitzan Tal@nitzantal.bsky.social · last yr.

📢Preprint out! Excited to share my final work from the @soreklab.bsky.social! We mined phage dark matter using structural features shared by anti-defense proteins (viral tools that help phages bypass bacterial immunity) to guide discovery. Found 3 new families targeting immune signaling!

PfamDB@pfamdb.bsky.social · last yr.

🚀 HUGE NEWS: Pfam 37.4 is LIVE! 318 brand-new protein families + 4 new clans! 🧬 Total collection now: 24,736 entries! 📈 Get exploring via InterPro website, API & Pfam FTP! 💻🧪

Pfam 37.4 318 new families 4 new clansContent Over 24,736 entries describing protein families, domains and repeats.
Bioinformatics Advances@bioinfoadv.bsky.social · last yr.

🔎 Isopeptor is available as a #Python-based tool that can be accessed via the command line, a Python API, or Google Colaboratory. Use it for automated isopeptide bond detection & validation in protein structures! Google Colab: https://t.ly/D4Lny GitHub:

GitHub - FranceCosta/isopeptor: Python package for the detection of intamolecular isopeptide bonds in protein structures.

Python package for the detection of intamolecular isopeptide bonds in protein structures. - GitHub - FranceCosta/isopeptor: Python package for the detection of intamolecular isopeptide bonds in pr...

github.com

Daniel Rigden@danielrigden.bsky.social · 2y ago

Well this new paper is a real pleasure! Not every Masters student gets to publish their work, so special congratulations to Olivia Pratt. www.csbj.org/article/S200... She shows that AlphaFold 2, but not other tools, has a real blind spot with perfect sequence repeats. (1/n)

AlphaFold 2, but not AlphaFold 3, predicts confident but unrealistic β-solenoid structures for repeat proteins

AlphaFold 2 (AF2) has revolutionised protein structure prediction but, like any new tool, its performance on specific classes of targets, especially those potentially under-represented in its training...

csbj.org

Loïc Lannelongue@loiclnlg.bsky.social · 2y ago

🚨🌱 Interested in making scientific computing greener? Here is a chance to do just that in Cambridge: 2 open research roles to work with me and the Green Algorithms project. More details about the roles below👇 and at www.lannelongue-group.org/join/ ⏳ Closing: Feb 4 for one, Feb 17 for the other

Photo of Cambridge River and view over King's College with a group of people punting.Photo of the Heart and Lungs Research Institute on Cambridge Biomedical Campus. The building is bronze-colour and in front of a pond.
Tom Collins@tomcollinsresearch.bsky.social · 2y ago

I will start my Bluesky life by sharing an opportunity for those who are interested in researching fungi and how they adapt to their environment. Awards of up to £3 million available, more details at the link below or in our webinar on 27th November. wellcome.org/grant-fundin...

Fungal adaptation | Grant Funding | Wellcome

This award will fund research on the mechanisms and triggers for fungal adaptation. Find out eligibility, what's in scope and how to apply.

wellcome.org

Izzy Jayasinghe@ijayas.bsky.social · 2y ago

Our friends at EMBL Australia have called for expressions of interest for the position of Scientific Head. It's a fantastic opportunity for senior scientists based in Aus to bring a vision, stakeholders, and resources to a network that has produced such vibrant scientists and discoveries. 🧪

EMBL Australia invites expressions of interest for Scientific Head role | EMBL Australia

Professor James Whisstock is stepping down after eight transformative years as Scientific Head of EMBL Australia. Prof. Whisstock is a structural biologist at Monash Biomedicine Discovery Institute an...

emblaustralia.org

ISCB News@iscb.bsky.social · 2y ago

🔔The ISCB November 2024 Newsletter is available! In this edition, we share new ISCB partnerships, reminders of upcoming deadlines, and information about sustainable computing in the ISCB Green Pages! 🔗 Read the newsletter here: t.ly/t8AXG

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Alex Bateman@alexbateman1.bsky.social · 2y ago

Well this is interesting. Claude 3.5 Sonnet seems to have started to recognise the limits of its own understanding. This is much more useful than the usual confident sounding hallucinations we've got used to from LLMs.

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