Metagenome-assembled genomes from urban pigeon feces in Istanbul, Türkiye | Microbiology Resource Announcements journals.asm.org/doi/10.1128/...

What if a simple blood test could help detect early cognitive decline? Our latest study shows that microbe-derived metabolites shaped by the gut microbiome can distinguish early-stage cognitive impairment with promising accuracy.

Our article has been published today in @PeerJSTM peerj.com/articles/20990 #Bioinformatics #EcosystemScience #Microbiology #Oncology

Finally out in Bioinformatics (OUP): our method for using (Interleaved) Bloom Filters for efficient mapping of de novo sequences against large databases in (meta)proteomics. MegaPX: fast and space-efficient peptide assignment method using IBF-based multi-indexing academic.oup.com/bioinformati...

Book Chapter on Microbial Omis by @muzafferarikan.bsky.social et al.: link.springer.com/chapter/10.1...

I woke up to some very sad news... Peer was a giant of bioinformatics and computational biology and an inspiring mentor to everyone who had been in his group. I find myself repeating things he said all the time and will probably keep doing so for the rest of my life www.embl.org/news/embl-an...

GcMeta - a new global resource of metagenome-assembled genomes and their encoded functions with an easy to use, interactive and searchable website academic.oup.com/nar/advance-...

MetaPepticon: automated prediction of anticancer peptides from microbial genomes and metagenomes https://www.biorxiv.org/content/10.1101/2025.10.28.685052v1

Interested in #drugs, #microbiome and #antibiotic resistance, then check out our paper on the effects of over 300 drugs on the gut microbiome. Exciting results as well on the role of antibiotic resistance defining how microbiomes respond to drugs. @quadraminstitute.bsky.social rdcu.be/eMmcT

Practical Guidance for Training Machine Learning Models in Metabolomics and Mass Spectrometry Research | Analytical Chemistry pubs.acs.org/doi/full/10....

Our recent publication has appeared in Gut Microbes. Access it through the link below: www.tandfonline.com/doi/full/10....

Dominant taxa in microbiomes are obviously important but here's a discussion on low abundance taxa that are highly persisting/prevalent. We can see a lot of these in metagenomics, often obscured by a high false negative rate. 🔗 www.sciencedirect.com/science/arti...

Mass-spectrometry-based proteomics: from single cells to clinical applications www.nature.com/articles/s41...

"Dark proteins." Also known as microproteins. There are thousands of them in our cells and we're still struggling to define their function. Succinctly reviewed @nature.com www.nature.com/articles/d41...

We knew about the potential origin of Parkinson's disease from the gut (known as Braak’s hypothesis). But the kidney?! www.nature.com/articles/s41...

5,562 proteins were found to have tissue-specific enrichment across 32 human tissues. The majority of them (3,088) are enriched at the protein but not RNA level. The brain hosts the largest number of proteins that are only enriched at the protein level but not RNA level.

Some gut microbes can degrade mucus. 🍬🦠🍭 ✂️ What enzymes do they use to degrade mucin glycans and how does that lead to cross-feeding? #glycotime #microbiology academic.oup.com/glycob/artic...

AI in microbiome-related healthcare

worth a read: A framework for understanding collective microbiome metabolism

Excited to share “Bin Chicken”, substantially improving genome recovery through rational metagenomic assembly. Applied to public 🌍 metagenomes, it recovered 24,000 novel species 🦠, including 6 novel phyla. doi.org/10.1101/2024... @wwood @rhysnewell @CMR_QUT 🧵1/6

Here is our recent review on constructing protein sequence databases for metaptoteomics #microbiome #metaproteomics pubs.acs.org/doi/10.1021/...