Awesome! Good luck with your analysis

#FAIRData #bioinformatics #naturalproducts #plantmetabolism #computationalbiology #genomics #plantiSMASH #OpenScience #biorxiv #antiSMASH
#plantscience #specializedmetabolism #biosyntheticgeneclusters #transcriptionfactors #webserver #compbio @antismash.bsky.social

📖 Comprehensive documentation, for web server and CLI users and developers, and Zenodo-linked, versioned releases. 📘 Docs: lnkd.in/dc6YBpgU

Thank you to all plantiSMASH 2.0 coauthors! @marnixmedema.bsky.social @jjjvanderhooft.bsky.social @anneosbourn.bsky.social et al.

plantiSMASH 2.0 features:
🧬 Expanded detection rules for new BGC types
🔍 Substrate prediction and Regulatory analysis to prioritize BGCs
📚 Updated plantiSMASH 2.0 database covering 30k+ putative BGCs across 430 plant genomes ➡️ lnkd.in/dNQ54KFK

💡 plantiSMASH is a computational tool and web server for the identification of biosynthetic gene clusters (BGCs) in plant genomes.

🖥️ Webserver: lnkd.in/dh5Ckrp3
🐙 GitHub: lnkd.in/diMHJGCD
🎓 Zenodo plantiSMASH community: lnkd.in/dQs4j_vc

Hi @chenxinli2.bsky.social ! We were undergoing development of the new plantiSMASH 2.0 codebase. Is the issue persisting? Please contact us or submit an issue on GitHub if that's the case :) Thanks for spotting this!

Thank you to my supervisors @jjjvanderhooft.bsky.social and @marnixmedema.bsky.social for supporting this and other opportunities throughout my PhD!

#FAIRDataFund #FAIRdata #knowledgegraphs #plantsciences #naturalproducts

Or also our review on Effective Visualisation Strategies, section 4.4 on multi-omics data integration and the use of knowledge graphs: pubs.rsc.org/en/content/a...

Check out our opinion paper with Felicia Wolters for more insights on how we are planning to attain this! lnkd.in/dFPfmUTN (source of the Fig. 2 below)

If any of these opportunities sounds interesting to you, please DM me here!

More about the FAIR data fund: community.data.4tu.nl/the-fair-dat...

The grant will support two small projects with student assistants and organising a Mini-Symposium on knowledge graphs for natural product discovery 💡 “Powering a Unified Knowledge Base for Plant Natural Product Discovery” 💡

➡️ In a 🌰nutshell🐚:
I will connect 🌿 plant 🌿 multi-omics data via knowledge graphs to generate useful visualisations and predictions for discovering useful plant chemistry 🧪🧪!

The computational strategies, standards, and tools developed will support a continuous communal effort to explore plant metabolic diversity and discover natural products.

In my project, I will build a linked knowledge base and a flexible and standardized analysis workflow to integrate paired omics data for plant pathway and metabolite prioritization.

The #4TUResearchData FAIR Data Fund offers researchers an opportunity to apply for financial aid to cover the costs of making their datasets FAIR: Findable, Accessible, Interoperable and Reusable (the FAIR principles: lnkd.in/dCuf5QzJ).