Aim: improve gene function predictions of the plant kingdom to produce more climate change-resilient and nutritious crops.
Joined October 2014
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303 Photos and videos
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1/ How conserved are plant stress responses across 1 billion years of evolution? We built a cross-kingdom stress atlas spanning 36 species, from green algae to angiosperms, across 9 stresses. 13.6M DEG calls from 3,200 manually curated experiments. π§΅biorxiv.org/content/10.64898β¦
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π± 504k public plant RNA-seq samples Γ 1,200 species β live interactive
UMAP atlas.
Click any organ (256 PO terms) or evo-devo trait (57 of them) β top
gene families upregulated pop up on the right.
huggingface.co/spaces/mutwilβ¦
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1/π± Can we map how an entire field actually does science?
We built the Research Process Graph (RPG): a new way to capture not what a paper knows, but what it did, as Question β Method β Finding chains.
New preprint π§΅β¬οΈ
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7/It's also a tool. Our public database includes a "Digital Professor" that turns any natural-language question into a literature-grounded research prospectus.
π rpg.connectome.tools/π
publish.obsidian.md/mutwillaβ¦ β¬οΈ
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8/RPG is journal- and field-agnostic. Next: extend it across the entire plant-science literature.
Huge thanks to Jing Yang & Manoj Itharajula.
What would you ask the literature if you could query its reasoning directly?
#PlantScience #LLM #AI
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20 years of plant biology in one chart. We asked: which techniques rose, which faded (source, Plant Cell)?
RNA-seq: 0.3% β 34% (β100Γ). CRISPR: 0 β 21%. Northern blot, microarray, RT-PCR: collapsed. Western, qPCR, confocal: still everywhere.
#PlantBiology
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Few days ago we shipped RPG β every Plant Cell paper as a QβMβF graph. 150,000 nodes, 2,600 papers.
Today: the people who connect those papers.
A new expert similarity network at rpg.connectome.tools π± 1/6
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Why this matters beyond plant biology: science happens at intersections. Between people, between fields, between methods that shouldn't have been combined until someone did.
Making those intersections visible is the goal.
Try it free: rpg.connectome.tools
Built by @MutwilLab
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Currently, the analysis is limited to open access corresponding authors from Plant Cell (for now)
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It is said that science and art are related, and @AnneOsbourn1 definitely takes it to the next level.
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Check out Rockall by Anne Osbourn by Story Machine on @Kickstarter kickstarter.com/projects/rocβ¦
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Reading a scientific paper takes hours. No PI, no student, can keep up. And keyword search finds words, not ideas.
So we built a Research Process Graph: a new way to read the literature.
rpg.connectome.tools π± 1/7
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Why this matters beyond plant biology:
Science is structured knowledge stored as unstructured prose. RPG turns the research process itself into a queryable database. Ask the literature directly -> get grounded, paper-linked answers in seconds instead of weeks.
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Plant biology is just the start. The approach generalizes to any scientific field.
Try it free: rpg.connectome.tools
Built by the @MutwilLab at the University of Copenhagen. Feedback welcome at discord.gg/qr8tYYHu7Y as this is early.
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