Alex Bateman retweeted
We're excited to share our new integration with @InterProDB!
Now, when you search for a Pfam on InterPro, you'll see a Genomic Context section with results from SeqHub, which show the queried Pfam with neighboring genes across different taxa.
Check out this Pfam entry: ebi.ac.uk/interpro/entry/pfa…
Thank you to our advisor @Alexbateman1 and the rest of the InterPro team for the partnership!
Alex Bateman retweeted
Here is the link to our latest blogpost going through all the updates included in InterPro 110.0 and the release of InterProScan 6 🥳ebi.ac.uk/about/news/updates…
Alex Bateman retweeted
EMBL scientists uncovered more about how molecular machines interact, revealing new aspects of bacterial protein production, transport, and folding – and a new way to study ‘communities’ of molecular machines.
embl.org/news/science-techno…
Alex Bateman retweeted
🦠 Just published in Bioinformatics Advances: "Identification and characterization of bacterial repeat-in-toxin adhesins using long-read genome analysis"
Find it here: doi.org/10.1093/bioadv/vbag2…
Alex Bateman retweeted
A long-read pipeline with MMseqs2 clustering, InterProScan, and AlphaFold3 modeling identified 35 RTX adhesin isoforms across 16 loci in seven bacterial pathogens. Ligand-binding domains include carbohydrate-binding modules and von Willebrand Factor A-like domains in mix-and-match arrangements.
Alex Bateman retweeted
We lost a giant of our field this March and we are happy to be able to share this tribute: "Phil Bourne (1953–2026): From small molecules to big data—the journey of a multifaceted visionary".
Read the tribute here: doi.org/10.1093/bioadv/vbag2…
Alex Bateman retweeted
Microbial genomes have been extensively mined for new proteins, but the noncoding sequences between genes remain largely unexplored despite encoding important regulatory and functional information.
In our new work, we asked whether gLM2 could help systematically discover these intergenic features. tatta.bio/intergenic-sae
Alex Bateman retweeted
This one is really special to me! As someone who probably spends more time on @uniprot than on Google, I’m incredibly proud that SeqHub search is now integrated with UniProt, bringing together UniProt’s rich protein annotations with SeqHub’s view of native genomic context across diverse microbial lineages.
This gives researchers a more complete picture of proteins of interest, connecting what we know about their function with the genomic neighborhoods and evolutionary contexts in which they occur.
@uniprot is where most researchers start when they want to understand a protein. As of today, prokaryotic entries there will show something new: genomic context, powered by SeqHub, right in the Sequence section of the page.
Alex Bateman retweeted
🧬🏴 Abstract submissions are open for ISCB UK 2027 in Glasgow this April! Submit your original #bioinformatics research to be considered for a talk or poster presentation.
📅 Submission deadline: Tuesday, February 16, 2027
📥Submit here: iscb.org/uk2027/call-for-sub…
Alex Bateman retweeted
Cyanobacterial RNA-binding protein Asl3888 is ribosome-associated and involved in C/N metabolism. It is encoded in almost all cyanobacteria, green, red, and brown algae, diatoms, cryptomonads, and pelagophytes.
biorxiv.org/content/10.64898…
Alex Bateman retweeted
🌐 Recently published in Bioinformatics Advances: "Usage and impact of global biodata resources"
Read it here: doi.org/10.1093/bioadv/vbag2…
Alex Bateman retweeted
Job alert: Biology is amazing (EMD-70204). As a biocurator, you get a front-row seat to the structures being deposited in the world’s structural biology databases. Come join the EMDB and OneDep biocuration team. We’re hiring a biocurator. Apply by 2nd Aug: tinyurl.com/47t93kxp
Alex Bateman retweeted
One of the most-viewed PNAS articles in the last week is “Linear-time prediction of proteome-scale microbial protein interactions.” Explore the article here: ow.ly/MrN950ZhVpi
For more trending articles, visit ow.ly/TVz850ZhVpk.
ALT Interactive proteome-scale PPI analysis and visualization on Seqhub.org.
Alex Bateman retweeted
There’s still time to apply!
Come and join us as our UniProt Protein Function Development Team Leader, based at @EMBL-EBI in Cambridge, UK.
Apply here: embl.wd103.myworkdayjobs.com…
Applications close on 15th July 2026.
Alex Bateman retweeted
Major changes to UniProt proteomes are here!
New reference proteome selection workflow, new pan proteome workflow and downloads, and signification increases in the number of species and reference proteomes available.
See our release notes: uniprot.org/release-notes/20…
Alex Bateman retweeted
🔍 Recently published in Bioinformatics Advances: "Folding the unfoldable 2: Using AlphaFold and ESMFold to explore spurious proteins"
Find the full paper at: doi.org/10.1093/bioadv/vbag1…
Authors include: @Alexbateman1
Alex Bateman retweeted
This study evaluated whether ESMFold and AlphaFold3 assign high confidence scores to spurious protein sequences, as previously observed with AlphaFold2.
Alex Bateman retweeted
💻 Structure predictions and code are available at doi.org/10.5281/zenodo.20426… and github.com/0rra/fold_unfold2
Alex Bateman retweeted
We have finalized major changes to UniProtKB in release 2026_02.
Now composed of reference proteome plus additional important proteins and a new collaboration with Google Deepmind.
Catch-up on all our changes: uniprot.org/release-notes/20…
Alex Bateman retweeted
AI-generated protein annotations are expanding in UniProtKB. The new ProtNLM2 pilot dataset from @GoogleDeepMind covers 26K+ entries, predicting protein name, function, localization, keywords, and GO terms, supported by evidence-based corroboration. uniprot.org/help/ProtNLM
