marek mutwil 🇺🇦
@LabMutwil
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Aim: improve gene function predictions of the plant kingdom to produce more climate change-resilient and nutritious crops.
Denmark
Joined October 2014
Our 📰🕸️PlantConnectome is out https://t.co/PYiNbWAuGi. The online tool is here: https://t.co/2TXxfGoRFC. Explore knowledge graphs generated from 71,000 articles, study protein-protein interactions, regulatory networks, organs, stresses and others! #knowledge #graph #llm #plant
pubmed.ncbi.nlm.nih.gov
One of the main quests in plant biology is understanding how gene products and metabolites work together to form complex networks that drive plant development and responses to environmental stimuli....
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Poor Springer Nature is allowing banners with paid commercials... I guess the already exorbitant open access publication costs are not covering the bills? 😵💫 #AcademicTwitter
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PlantConnectome: A knowledge graph database encompassing >71,000 plant articles (Shan Chun Lim , Manoj Itharajula , Mads Harder Møller , Rohan Shawn Sunil , Kevin Fo , et al) https://t.co/kHkDvS5Phe
@ASPB #PlantSci
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I tend not to post any personal pics here, but do admire my new drysuit!
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We are hiring! If you have experience in plant genomics + AI, or promoter engineering + synthetic biology, check out our two open postdoc positions (computational + wetlab): https://t.co/pdtXE8gYAN please RT #ERC
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It has been a while… but an updated, faster & more accurate version of OrthoFinder is now out! Scales to thousands of species on conventional compute resources with higher accuracy than ever before and the same data rich fully phylogenetic outputs 👉 https://t.co/VivnkqSyKs
biorxiv.org
Here, we present a major advance of the OrthoFinder method. This extends OrthoFinder’s high accuracy comparative genomic framework to provide substantially enhanced scalability and accuracy. Specif...
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🚨 New resource for stress-resilient crops! We profiled 3 leafy greens (cai xin, lettuce, spinach) under 24 hydroponic stress conditions using 276 RNA-seq libraries. 🧬 Conserved GRNs revealed, new stress database! Published in FIPS
frontiersin.org
Hydroponics is emerging as a vital method for producing resilient leafy greens in controlled environments. To systematically capture how hydroponically grown...
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Check out Jan Hübbers's In Brief article describing our PlantConnectome (Plant Cell, in press)
academic.oup.com
One of the core strengths of large language models (LLMs) is their ability to reason across vast amounts of text, enabling them to extract functional relat
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Our Plant Chatbot ( https://t.co/I6965ypgNQ) has been updated with a new interface. To make the results more accurate, we now include a large language model guardrail that highlights relevant results obtained from the knowledge graph. Give it a spin!
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Very discouraging. Conclusion: keep doing what you have been doing?
Reading in journal club: Shifting research focus comes with the risk of reduced impact https://t.co/pTAol3kDlM
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The knowledge graph viewer now color-codes the entity and relationship types. For example, nodes representing gene IDs are orange, while activation relationships are represented by green edges.
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2) A table summarizing the found relationships (e.g., MYB46 regulates CESA1), the experimental evidence (e.g., yeast-one-hybrid) and Pubmed IDs where the relationship was mentioned. It's still a prototype. Let us know what you think! 3/3
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It can answer questions: 🧬 “Which genes are regulated by MYB46?” 2/3 🧪 “What boosts heat tolerance?” You will get: 1) The knowledge graph answering your question
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🌿 Meet PlantChatbot — your AI companion (ChatGPT-like tool) for plant biology! Built on a knowledge graph from 200,000+ papers and powered by LLMs. Try it now: https://t.co/I6965ypgNQ 🌱 #PlantScience #AI #KnowledgeGraph #Chatbot 1/3
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@NaturePlants Our lab has a publication mug policy. If you publish as a first author in one of the better journals, you get a mug. The latest recipient is Zahin for the Fern paper.
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The May 2025 issue is now fully online, with a cover highlighting the cell wall of ferns, from: "Comparative transcriptomics in ferns reveals key innovations and divergent evolution of the secondary cell walls" https://t.co/XlGIC8SqQe
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Super cool to see our petiole cross sections from our fern story make it to the cover of @NaturePlants . Cudos to our collaborator Richard Sibout and his team. https://t.co/Pma0nSbxiz
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Good thing I love my job 😅
NEWS: 🇩🇰 Today, the retirement age in Denmark has been raised to 70 for people born after the end of 1970.
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Suprising results!!! Plants lacking RBP47, the well known Stress Granule marker are more resistant to high temperature stress 👀☀️ https://t.co/shPrYmA9AW First manuscript from our group 👍 and collaborators 💪
biorxiv.org
Stress granules (SGs) are liquid-liquid phase-separated condensates that sequester RNA, proteins, and metabolites to modulate cellular physiology under stress. In Arabidopsis, the RNA-binding protein...
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