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jjjvanderhooft.bsky.social
Assistant Professor in Computational Metabolomics. Fascinated by the diverse chemistry of nature. Strives for Community-based solutions and Open Science.
238 posts 1,160 followers 153 following
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Posts 44 Comments 6

Reverse metabolomics made these two papers a reality. www.nature.com/articles/s41... and www.cell.com/cell/fulltex... but hard for others to do similar analysis as the data science is at a high level. So @vincentlamoureux.bsky.social wanted to enable others with this powerful strategy rdcu.be/ebIF2

submitted 3 days ago • 1 comment

MSConnect: Open-Source, End-to-End Platform for Automated Mass Spectrometry Data Management, Analysis, and Visualization #JProteomeRes pubs.acs.org/doi/10.1021/...

submitted 3 days ago • 0 comments

It’s not every day one gets to publish an article with NASA astronauts. This journey started in 2019 and withe the goal to understand the microbial and chemical make-up of the space station. We had lots of experience with analysis from swabs on earth.

submitted 4 days ago • 1 comment

Another fun paper that was started by a good and important question by Prajit - an undergrad in the lab - about imputation. We then teamed up with the Kelley lab as they are good at such benchmarking in data science. So fun to work woth them. pubs.acs.org/doi/10.1021/...

submitted 3 days ago • 0 comments

www.linkedin.com/posts/martin...

submitted 3 days ago • 0 comments

Good morning from....

submitted 6 days ago • 1 comment

got microbial metabolites? Add to the public knowledgebase available through GNPS2! cmmc.gnps2.org

submitted 7 days ago • 0 comments

www.linkedin.com/posts/jjjvan... With @mmzdouc.bsky.social

submitted 7 days ago • 0 comments

www.linkedin.com/posts/jjjvan...

submitted 7 days ago • 0 comments

www.linkedin.com/posts/jjjvan...

submitted 7 days ago • 0 comments

www.linkedin.com/posts/jjjvan... #Bioinformatics #metabolomics #CompMetabolomics

submitted 8 days ago • 0 comments

#Wageningen 😎

submitted 8 days ago • 1 comment

reminder: fancy model will not salvage your crappy data; neither will fancy figures.

submitted 8 days ago • 4 comments

www.linkedin.com/posts/fidele... #metabolomics #CompMetabolomics

submitted 8 days ago • 0 comments

I spent some time cleaning up my repo demonstrating how to use the NCBI Datasets REST API to do automated and/or bulk retrieval of genomes, by accession or by taxonomy. It's not super well documented but it does all seem to work :). Enjoy!

submitted 9 days ago • 1 comment

My cartoon for today’s @guardian books.

submitted 9 days ago • 22 comments

www.linkedin.com/posts/jjjvan...

submitted 10 days ago • 0 comments

Caption: "Where did I leave it again?!"

submitted 12 days ago • 0 comments

1/3 In a new preprintlet, we show that representing mass spectra as path graphs works well. In a regression task predicting QED, mass spectra line graphs + GAT performed 24% better (MAE) than binning + MLP. With @jjjvanderhooft.bsky.social and Niek de Jonge. arxiv.org/abs/2502.10851

submitted 13 days ago • 2 comments

1/ I am seeing a lot of comments on the slashing of NIH support along the lines of “universities should just spend their huge endowments.” I’m the last person to cheer on the institutional stratification rising endowments have contributed to. But let me explain why this is not a solution.

submitted 13 days ago • 46 comments

Gaining insights into the complexity of specialized metabolites and their possible ecological roles These metabolites not only function as antimicrobials, but also as cue molecules among other peculiar functions -see our paper in microLIFE of @femsjournals.bsky.social on surfactin and subtilosin A

submitted 14 days ago • 0 comments

Awestruck by its massive size, miniscule details, and marvelous construction! 😎

submitted 13 days ago • 0 comments

We will be hosting the first @mzmine.bsky.social Community Meeting at @iocbprague.bsky.social. Please register if you wish to learn about the latest developments in mzmine. More info: docs.google.com/document/d/1...

submitted 14 days ago • 0 comments

Drugs that can prevent or relieve migraine attacks are only effective for some people. Research is starting to untangle the reasons why https://go.nature.com/4b3AsLC

submitted 13 days ago • 1 comment

Auf wiedersehen Tübingen 😎 Heading North again....

submitted 14 days ago • 1 comment

Good morning from .... 😎

submitted 15 days ago • 1 comment

Wageningen University & Research #campus on a sunny winter day in February 😎

submitted 17 days ago • 0 comments

#Wageningen today (spring is near, but winter is still lingering around)

submitted 18 days ago • 0 comments

🚨 New Preprint Alert 🚨 Biosynfoni: a light-weight biosynthesis inspired molecular fingerprint! 😎 #ProudPI #CompMetabolomics www.linkedin.com/posts/jjjvan...

submitted 19 days ago • 0 comments

Today in #Tilburg 😎

submitted 23 days ago • 0 comments

Doorwerth near #Wageningen today 😎

submitted 26 days ago • 0 comments

Great visit to the North to come together with our NWO KIC Microbiome consortium led by @marnixmedema.bsky.social! It was great hearing progress by all parties and discussing some next steps towards prioritizing bioactive RIPPs 😎

submitted 28 days ago • 0 comments

I just published: 12 tips for effective leadership I spent three days at a leadership course. These are the most helpful takeaways. link.medium.com/KGHiePpEGQb

submitted 28 days ago • 1 comment

Sharp shadows with soft white toppings in #Wageningen 😎

submitted 29 days ago • 0 comments

Winter ❄️ returned to #Wageningen with blue skies and low hanging 🌞 😎

submitted 30 days ago • 0 comments

White shadows in #Wageningen 😎

submitted 30 days ago • 0 comments

Good morning from #Wageningen - enjoy your weekend 😎

submitted 31 days ago • 0 comments

Get a grasp of the chemistry of microbiomes! Check out Pilleriin Peets' preprint: she developed chemical characteristics vectors to reanalyze EMP's untargeted metabolomics data: www.biorxiv.org/content/10.1... with Aris Litos, Daniel Garza, Kai Dührkop, @jjjvanderhooft.bsky.social & Sebastian Böcker

submitted 35 days ago • 0 comments

#Wageningen today 😎

submitted 36 days ago • 0 comments

🌟 Don’t miss the first 2025 HUMAN Webinar! 🌟 📅 7 Feb 2025 | 13:00 CET 🎙️ Featuring: Purva Kulkarni, Head of Translational Metabolomics, Radboud UMC 💡Free for all and open to anyone interested! 🔗 Link: bit.ly/humandn_webinars #PrecisionDiagnostics #Metabolomics #RareDiseases #HUMAN #Webinar

submitted 39 days ago • 0 comments

‘Big data’ generated from outsourced or centralized facilities often lacks methodological information. This Perspective outlines how and why researchers, service providers, and other parties should report on #methodology and sample #metadata to improve scientific #reproducibility. plos.io/42hSck6

submitted 46 days ago • 0 comments

🚨 Preprint alert 🚨 Chemistry-based vectors map the chemical space of natural biomes from untargeted mass spectrometry data Great collaboration with Pilleriin Peets and colleagues from Jena! 😎 #CompMetabolomics #metabolomics --> www.linkedin.com/posts/jjjvan...

submitted 37 days ago • 0 comments

MassSpecGym is the largest publicly available collection of mass spectra data with 231K spectra for 29K unique molecular structures. 33% of the dataset was generated from newly measured, in-house data. 🛡️The dataset is now certified on Polaris! polarishub.io/datasets/rom... youtu.be/G8ZnVRm0ogc

submitted 38 days ago • 1 comment

🚨 Preprint alert 🚨 We have just released a new version of our MS2DeepScore 2.0 preprint. Excitingly, our model is now able to do reliable cross-ionization mode chemical similarity predictions between positive and negative ion mode tandem mass spectra. Read more in: www.biorxiv.org/content/10.1...

submitted 38 days ago • 1 comment