AlphaFold Database is expanding into pandemic preparedness. Together with NVIDIA, DeepMind, EBI et al. we exhaustively predicted ~1.7 million homo- & heterodimers across 2,812 viral proteomes, resulting in 8,028 high-confidence predictions.
📄 research.nvidia.com/labs/dbr/ass...
🌐 alphafold.ebi.ac.uk
📄 research.nvidia.com/labs/dbr/ass...
🌐 alphafold.ebi.ac.uk
September 24, 2026 at 2:24 PM
AlphaFold Database is expanding into pandemic preparedness. Together with NVIDIA, DeepMind, EBI et al. we exhaustively predicted ~1.7 million homo- & heterodimers across 2,812 viral proteomes, resulting in 8,028 high-confidence predictions.
📄 research.nvidia.com/labs/dbr/ass...
🌐 alphafold.ebi.ac.uk
📄 research.nvidia.com/labs/dbr/ass...
🌐 alphafold.ebi.ac.uk
Tl;dr:
Mosquito proteomes match the proteins in our blood, and we suggest that your hemoglobin has no isoleucine as a defense against the very parasites mosquitoes carry
Mosquito proteomes match the proteins in our blood, and we suggest that your hemoglobin has no isoleucine as a defense against the very parasites mosquitoes carry
September 25, 2026 at 3:28 PM
Tl;dr:
Mosquito proteomes match the proteins in our blood, and we suggest that your hemoglobin has no isoleucine as a defense against the very parasites mosquitoes carry
Mosquito proteomes match the proteins in our blood, and we suggest that your hemoglobin has no isoleucine as a defense against the very parasites mosquitoes carry
🩸🩸🩸TODAY WE SHARE TWO MAJOR DISCOVERIES🩸🩸🩸
1. We peered into genomes and brains of the rare mosquitoes that QUIT feeding on blood and found what biting is built from
2. Humans got rid of isoleucine in their blood, malaria suffers from it, and mosquito proteomes budget for it
THREADS>
1. We peered into genomes and brains of the rare mosquitoes that QUIT feeding on blood and found what biting is built from
2. Humans got rid of isoleucine in their blood, malaria suffers from it, and mosquito proteomes budget for it
THREADS>
September 25, 2026 at 3:28 PM
🩸🩸🩸TODAY WE SHARE TWO MAJOR DISCOVERIES🩸🩸🩸
1. We peered into genomes and brains of the rare mosquitoes that QUIT feeding on blood and found what biting is built from
2. Humans got rid of isoleucine in their blood, malaria suffers from it, and mosquito proteomes budget for it
THREADS>
1. We peered into genomes and brains of the rare mosquitoes that QUIT feeding on blood and found what biting is built from
2. Humans got rid of isoleucine in their blood, malaria suffers from it, and mosquito proteomes budget for it
THREADS>
UniProt is changing its reference proteomes resource.
Reference proteomes will remain in UniProtKB, while others will move to UniParc.
Read more about these changes:
www.ebi.ac.uk/about/news/u...
🧬 🖥️
Uniprot is a collaboration between EMBL-EBI, @sib.swiss & the Protein Information Resource.
Reference proteomes will remain in UniProtKB, while others will move to UniParc.
Read more about these changes:
www.ebi.ac.uk/about/news/u...
🧬 🖥️
Uniprot is a collaboration between EMBL-EBI, @sib.swiss & the Protein Information Resource.
Changes to UniProt proteomes
UniProt, the data resource for protein sequence and function information, is making major changes to its proteomes resource and to the UniProt Knowledgebase. UniProt has developed a new workflow that ...
www.ebi.ac.uk
November 4, 2025 at 9:58 AM
UniProt is changing its reference proteomes resource.
Reference proteomes will remain in UniProtKB, while others will move to UniParc.
Read more about these changes:
www.ebi.ac.uk/about/news/u...
🧬 🖥️
Uniprot is a collaboration between EMBL-EBI, @sib.swiss & the Protein Information Resource.
Reference proteomes will remain in UniProtKB, while others will move to UniParc.
Read more about these changes:
www.ebi.ac.uk/about/news/u...
🧬 🖥️
Uniprot is a collaboration between EMBL-EBI, @sib.swiss & the Protein Information Resource.
Domain classification of archaeal proteomes reveals conserved fold repertoire journals.plos.org/ploscompbiol... #jcampubs
Domain classification of archaeal proteomes reveals conserved fold repertoire
Author summary Archaea are the least-studied of the three domains of life, yet they matter enormously: they flourish in extreme environments, drive global nutrient cycles, and are closely tied to the ...
journals.plos.org
September 21, 2026 at 1:49 PM
Domain classification of archaeal proteomes reveals conserved fold repertoire journals.plos.org/ploscompbiol... #jcampubs
BFVD v3 contains 5.8M viral protein structures, 16× more than v2; 75% high quality, filling a major gap in AFDB coverage. It fully covers 72.6% of reference proteomes and spans 72.7% of ICTV species. Great work by @eunbelivable.bsky.social et al.
📄 www.biorxiv.org/content/10.6...
🌐 bfvd.foldseek.com
📄 www.biorxiv.org/content/10.6...
🌐 bfvd.foldseek.com
September 19, 2026 at 6:48 AM
BFVD v3 contains 5.8M viral protein structures, 16× more than v2; 75% high quality, filling a major gap in AFDB coverage. It fully covers 72.6% of reference proteomes and spans 72.7% of ICTV species. Great work by @eunbelivable.bsky.social et al.
📄 www.biorxiv.org/content/10.6...
🌐 bfvd.foldseek.com
📄 www.biorxiv.org/content/10.6...
🌐 bfvd.foldseek.com
2. Isoleucine absence from adult human hemoglobin is mirrored in mosquito proteomes and limits malaria parasite growth
www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6...
Isoleucine absence from adult human hemoglobin is mirrored in mosquito proteomes and limits malaria parasite growth
Amino acid composition within a proteome is conventionally viewed as a property of individual protein function. However, specific nutrient scarcity has been shown to reshape which amino acids are enco...
www.biorxiv.org
September 25, 2026 at 3:28 PM
2. Isoleucine absence from adult human hemoglobin is mirrored in mosquito proteomes and limits malaria parasite growth
www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6...
Out Now! Community context reshapes microbial proteomes and reduces functional overlap #MicroSky
Community context reshapes microbial proteomes and reduces functional overlap
Nature Microbiology, Published online: 24 April 2026; doi:10.1038/s41564-026-02310-wBiotic interactions modulate protein abundance, reducing functional redundancy and increasing productivity in complex bacterial communities.
go.nature.com
April 24, 2026 at 3:24 PM
Out Now! Community context reshapes microbial proteomes and reduces functional overlap #MicroSky
Looks interesting 🤓: "Community context reshapes microbial proteomes and reduces functional overlap"
@natmicrobiol.nature.com
www.nature.com/articles/s41...
@natmicrobiol.nature.com
www.nature.com/articles/s41...
Community context reshapes microbial proteomes and reduces functional overlap - Nature Microbiology
Biotic interactions modulate protein abundance, reducing functional redundancy and increasing productivity in complex bacterial communities.
www.nature.com
April 24, 2026 at 3:15 PM
Looks interesting 🤓: "Community context reshapes microbial proteomes and reduces functional overlap"
@natmicrobiol.nature.com
www.nature.com/articles/s41...
@natmicrobiol.nature.com
www.nature.com/articles/s41...
Excited to release the Herculean efforts of @scottchisholm.bsky.social &Co. defining the subcellular #hyperLOPIT spatial proteome of #Plasmodium schizonts. Proteomes defining 24 subcellular niches, including exported compartments in the blood cell, are identified.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
November 28, 2025 at 8:30 AM
Excited to release the Herculean efforts of @scottchisholm.bsky.social &Co. defining the subcellular #hyperLOPIT spatial proteome of #Plasmodium schizonts. Proteomes defining 24 subcellular niches, including exported compartments in the blood cell, are identified.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Thrilled to share our latest preprint describing an optimized spatial tissue proteomics workflow for the preparation and analysis of >100 proteomes / day at high spatial resolution.
Kudos to @melissaklingeberg.bsky.social 🥳 and big thanks to all our collaborators! bit.ly/3SCARw4
Kudos to @melissaklingeberg.bsky.social 🥳 and big thanks to all our collaborators! bit.ly/3SCARw4
An ultrasensitive spatial tissue proteomics workflow exceeding 100 proteomes per day
Achieving high-resolution spatial tissue proteomes requires careful balancing and integration of optimized sample processing, chromatography, and MS acquisition. Here, we present an advanced cellenONE...
bit.ly
June 5, 2025 at 5:57 PM
Thrilled to share our latest preprint describing an optimized spatial tissue proteomics workflow for the preparation and analysis of >100 proteomes / day at high spatial resolution.
Kudos to @melissaklingeberg.bsky.social 🥳 and big thanks to all our collaborators! bit.ly/3SCARw4
Kudos to @melissaklingeberg.bsky.social 🥳 and big thanks to all our collaborators! bit.ly/3SCARw4
First #bluetorial. 🎉🎉 We’re very happy to share our latest biorxiv #preprint, just in time before the holiday season. We explored how transposable elements (TEs) diversify eukaryotic proteomes and found a cool case in nematode F-box genes. #TEsky #evosky #Celegans
Short 🧵 with highlights.
Short 🧵 with highlights.
December 19, 2024 at 12:35 PM
First #bluetorial. 🎉🎉 We’re very happy to share our latest biorxiv #preprint, just in time before the holiday season. We explored how transposable elements (TEs) diversify eukaryotic proteomes and found a cool case in nematode F-box genes. #TEsky #evosky #Celegans
Short 🧵 with highlights.
Short 🧵 with highlights.
A paper in Nature Microbiology reports that the use of AI to mine proteomes of archaea led to the discovery of archaeasins, antimicrobials that kill drug-resistant bacteria in laboratory and animal models, offering a promising source of future antibiotics. #medsky 🧪
Deep learning reveals antibiotics in the archaeal proteome - Nature Microbiology
Use of artificial intelligence to mine proteomes of archaea led to the discovery of archaeasins, antimicrobials that kill drug-resistant bacteria in laboratory and animal models, offering a promising source of future antibiotics.
go.nature.com
August 16, 2025 at 4:32 PM
A paper in Nature Microbiology reports that the use of AI to mine proteomes of archaea led to the discovery of archaeasins, antimicrobials that kill drug-resistant bacteria in laboratory and animal models, offering a promising source of future antibiotics. #medsky 🧪
Eighteen million years of diverse enamel proteomes from the East African Rift 🏺🧪
www.nature.com/articles/s41...
Daniel R. Green, @louiseleakey.bsky.social , et al
Protein sequences within dense enamel tissues in one of the warmest regions on Earth promises the discovery of much older proteomes.
www.nature.com/articles/s41...
Daniel R. Green, @louiseleakey.bsky.social , et al
Protein sequences within dense enamel tissues in one of the warmest regions on Earth promises the discovery of much older proteomes.
July 11, 2025 at 6:30 PM
Eighteen million years of diverse enamel proteomes from the East African Rift 🏺🧪
www.nature.com/articles/s41...
Daniel R. Green, @louiseleakey.bsky.social , et al
Protein sequences within dense enamel tissues in one of the warmest regions on Earth promises the discovery of much older proteomes.
www.nature.com/articles/s41...
Daniel R. Green, @louiseleakey.bsky.social , et al
Protein sequences within dense enamel tissues in one of the warmest regions on Earth promises the discovery of much older proteomes.
I remain deeply skeptical of LLM based AI for most applications, but I see some real value in it as a way to explore complex and difficult-to-parse datasets like genomes, proteomes, and animal languages.
March 31, 2024 at 5:55 AM
I remain deeply skeptical of LLM based AI for most applications, but I see some real value in it as a way to explore complex and difficult-to-parse datasets like genomes, proteomes, and animal languages.
Splicing was discovered in adenoviruses, but was thought to be only anecdotal in plant viruses... We may need to revisit plant viral transcriptomes and proteomes!
How do geminiviruses maximize their limited coding capacity? Our recent preprint uncovers splicing of viral transcripts as one more strategy used by this viral family. We show that RNA splicing is prevalent in the geminivirus TYLCV — and required for infectivity! www.biorxiv.org/content/10.1...
Pervasive splicing in a plant DNA virus
Viruses maximize their limited coding space through strategies that increase transcript and protein diversity. In mammalian viruses, splicing is a well-established mechanism for proteome expansion, ye...
www.biorxiv.org
October 3, 2025 at 8:57 PM
Splicing was discovered in adenoviruses, but was thought to be only anecdotal in plant viruses... We may need to revisit plant viral transcriptomes and proteomes!
Unicore is now published on GBE 🚀
Unicore rapidly identifies structural single-copy core genes from input species proteomes for phylogenetic analysis. Powered by Foldseek and ProstT5, Unicore enables linear-scale structure-based phylogeny of any given set of taxa. 🧵1/n
📃 doi.org/10.1093/gbe/evaf109
Unicore rapidly identifies structural single-copy core genes from input species proteomes for phylogenetic analysis. Powered by Foldseek and ProstT5, Unicore enables linear-scale structure-based phylogeny of any given set of taxa. 🧵1/n
📃 doi.org/10.1093/gbe/evaf109
June 3, 2025 at 6:55 AM
Unicore is now published on GBE 🚀
Unicore rapidly identifies structural single-copy core genes from input species proteomes for phylogenetic analysis. Powered by Foldseek and ProstT5, Unicore enables linear-scale structure-based phylogeny of any given set of taxa. 🧵1/n
📃 doi.org/10.1093/gbe/evaf109
Unicore rapidly identifies structural single-copy core genes from input species proteomes for phylogenetic analysis. Powered by Foldseek and ProstT5, Unicore enables linear-scale structure-based phylogeny of any given set of taxa. 🧵1/n
📃 doi.org/10.1093/gbe/evaf109
Introducing our single-cell DVP framework combining strategic cell selection with protein gradient mapping algorithms. Analyzing hepatocyte proteomes across 18 human livers, revealing cross-species differences, and mapping disruptions in liver fibrosis.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
April 14, 2025 at 9:29 AM
Introducing our single-cell DVP framework combining strategic cell selection with protein gradient mapping algorithms. Analyzing hepatocyte proteomes across 18 human livers, revealing cross-species differences, and mapping disruptions in liver fibrosis.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Ever wondered how to spot new antibiotics hiding in biological data? Our latest paper in @natprot.nature.com @natureportfolio.nature.com offers a practical, end-to-end ML playbook for mining genomes & proteomes—AI vs AMR, one dataset at a time.
Link: rdcu.be/el2Go
Link: rdcu.be/el2Go
Tutorial: guidelines for the use of machine learning methods to mine genomes and proteomes for antibiotic discovery
Nature Protocols - In this Tutorial, we provide guidelines for the use of ML models to mine genomes and proteomes for the discovery of antimicrobial peptides, discussing the various stages of the...
rdcu.be
June 3, 2025 at 10:33 AM
Ever wondered how to spot new antibiotics hiding in biological data? Our latest paper in @natprot.nature.com @natureportfolio.nature.com offers a practical, end-to-end ML playbook for mining genomes & proteomes—AI vs AMR, one dataset at a time.
Link: rdcu.be/el2Go
Link: rdcu.be/el2Go
Microbial reaction rate estimation using proteins and proteomes academic.oup.com/ismej/advanc... #jcampubs
February 3, 2025 at 2:45 PM
Microbial reaction rate estimation using proteins and proteomes academic.oup.com/ismej/advanc... #jcampubs
Single-cell proteomics is gaining momentum.
It can analyze the proteomes of ~ 1,000 single cells / day, and we need to ensure high quality cell isolation and sample preparation:
⬛️ These approaches can help:
nature.com/articles/s41...
It can analyze the proteomes of ~ 1,000 single cells / day, and we need to ensure high quality cell isolation and sample preparation:
⬛️ These approaches can help:
nature.com/articles/s41...
May 9, 2025 at 11:09 AM
Single-cell proteomics is gaining momentum.
It can analyze the proteomes of ~ 1,000 single cells / day, and we need to ensure high quality cell isolation and sample preparation:
⬛️ These approaches can help:
nature.com/articles/s41...
It can analyze the proteomes of ~ 1,000 single cells / day, and we need to ensure high quality cell isolation and sample preparation:
⬛️ These approaches can help:
nature.com/articles/s41...
Uniprot @uniprot is developing new strategies and workflows for reference proteomes of agricultural species - Pedro Raposo presents at #PAG33
January 11, 2026 at 6:57 PM
Uniprot @uniprot is developing new strategies and workflows for reference proteomes of agricultural species - Pedro Raposo presents at #PAG33
We are analysing proteomes from the Arabidopsis MAGIC population and its 19 founder accessions- this will be a great feature for people to interrogate our data #PlantScience
Lots of cool new features at the BAR ePlant Browser, such as ecotype SNP data mapped to protein sequence and structure. Check it out at: bar.utoronto.ca/eplant/
#PlantScience @bar-plantbio.bsky.social
#PlantScience @bar-plantbio.bsky.social
March 27, 2025 at 12:19 PM
We are analysing proteomes from the Arabidopsis MAGIC population and its 19 founder accessions- this will be a great feature for people to interrogate our data #PlantScience
Isoleucine absence from adult human hemoglobin is mirrored in mosquito proteomes and limits malaria parasite growth https://www.biorxiv.org/content/10.64898/2026.09.23.753855v1
September 24, 2026 at 6:32 PM
Isoleucine absence from adult human hemoglobin is mirrored in mosquito proteomes and limits malaria parasite growth https://www.biorxiv.org/content/10.64898/2026.09.23.753855v1
Increased resolution for the discovery of newly synthesized cell-type specific proteomes in vivo!
Cell type-Specific In Vivo Proteomes with a Multi-copy Mutant Methionyl t-RNA Synthetase Mouse Line https://www.biorxiv.org/content/10.1101/2024.11.28.625838v1
Cell type-Specific In Vivo Proteomes with a Multi-copy Mutant Methionyl t-RNA Synthetase Mouse Line https://www.biorxiv.org/content/10.1101/2024.11.28.625838v1
While improvements in protein labeling techniques have allowed for the measurement of proteomes with
www.biorxiv.org
December 25, 2024 at 10:19 AM
Increased resolution for the discovery of newly synthesized cell-type specific proteomes in vivo!