Malte Kuehl
@maltekuehl.com
Computational medicine @ AU
Founder @ KH Biotechnology
Creator of spatiomic, pytximport and https://biocontext.ai
Interested in spatial omics, cancer & ageing
Lab: https://github.com/complextissue/
Personal: https://maltekuehl.com
Opinions my own.
Founder @ KH Biotechnology
Creator of spatiomic, pytximport and https://biocontext.ai
Interested in spatial omics, cancer & ageing
Lab: https://github.com/complextissue/
Personal: https://maltekuehl.com
Opinions my own.
Reposted by Malte Kuehl
What a suitable moment to have a community meeting by @maltekuehl.com and @biocontext.ai! Since we didn’t manage to have him on the conference, join us next Tuesday! 💪❤️
We will have our next community meeting on Tuesday, 2025-11-25 at 11:00 CST!
Malte Kuehl (@maltekuehl.com) will be presenting on BioContextAI!
More information and Zoom registration link in 🧵
Malte Kuehl (@maltekuehl.com) will be presenting on BioContextAI!
More information and Zoom registration link in 🧵
November 19, 2025 at 5:26 PM
What a suitable moment to have a community meeting by @maltekuehl.com and @biocontext.ai! Since we didn’t manage to have him on the conference, join us next Tuesday! 💪❤️
Reposted by Malte Kuehl
We will have our next community meeting on Tuesday, 2025-11-25 at 11:00 CST!
Malte Kuehl (@maltekuehl.com) will be presenting on BioContextAI!
More information and Zoom registration link in 🧵
Malte Kuehl (@maltekuehl.com) will be presenting on BioContextAI!
More information and Zoom registration link in 🧵
November 19, 2025 at 2:56 PM
We will have our next community meeting on Tuesday, 2025-11-25 at 11:00 CST!
Malte Kuehl (@maltekuehl.com) will be presenting on BioContextAI!
More information and Zoom registration link in 🧵
Malte Kuehl (@maltekuehl.com) will be presenting on BioContextAI!
More information and Zoom registration link in 🧵
Reposted by Malte Kuehl
🤖🧬 New biomedical MCP server added to the registry:
Nucleotide Archive MCP server
Check it out at https://biocontext.ai/registry/biocontext-ai/nucleotide_archive_mcp
Nucleotide Archive MCP server
Check it out at https://biocontext.ai/registry/biocontext-ai/nucleotide_archive_mcp
November 17, 2025 at 4:09 PM
🤖🧬 New biomedical MCP server added to the registry:
Nucleotide Archive MCP server
Check it out at https://biocontext.ai/registry/biocontext-ai/nucleotide_archive_mcp
Nucleotide Archive MCP server
Check it out at https://biocontext.ai/registry/biocontext-ai/nucleotide_archive_mcp
Reposted by Malte Kuehl
🤖🧬 New biomedical MCP server added to the registry:
anndata-mcp
Check it out at https://biocontext.ai/registry/biocontext-ai/anndata-mcp
anndata-mcp
Check it out at https://biocontext.ai/registry/biocontext-ai/anndata-mcp
November 13, 2025 at 12:46 PM
🤖🧬 New biomedical MCP server added to the registry:
anndata-mcp
Check it out at https://biocontext.ai/registry/biocontext-ai/anndata-mcp
anndata-mcp
Check it out at https://biocontext.ai/registry/biocontext-ai/anndata-mcp
Reposted by Malte Kuehl
The protein concentration in the cytoplasm is so high that the average protein has a water hydration shell with a thickness of only ≈ 10 water molecules separating it from the adjacent protein hydration shell.
1/2
1/2
November 10, 2025 at 12:57 PM
The protein concentration in the cytoplasm is so high that the average protein has a water hydration shell with a thickness of only ≈ 10 water molecules separating it from the adjacent protein hydration shell.
1/2
1/2
Reposted by Malte Kuehl
📄 BioContextAI is now slightly updated and published @natbiotech.nature.com
➡️ www.nature.com/articles/s41...
➡️ www.nature.com/articles/s41...
Glad to contribute to this collaborative community platform.
A case study shows MCP servers working together - combining BioContextAI Knowledgebase with our omnipath omnipathdb.org MCP (work in progress) to showcase interoperability. Looking forward to see how the ecosystem evolves!
A case study shows MCP servers working together - combining BioContextAI Knowledgebase with our omnipath omnipathdb.org MCP (work in progress) to showcase interoperability. Looking forward to see how the ecosystem evolves!
Preprint alert 🚨 Do you use chatbots in your work or even build MCP servers and agentic systems yourself?
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
November 7, 2025 at 1:57 PM
📄 BioContextAI is now slightly updated and published @natbiotech.nature.com
➡️ www.nature.com/articles/s41...
➡️ www.nature.com/articles/s41...
Reposted by Malte Kuehl
BioContextAI is a community hub for agentic biomedical systems - @puellesv.bsky.social @biocontext.ai go.nature.com/3JmqKux
BioContextAI is a community hub for agentic biomedical systems - Nature Biotechnology
Nature Biotechnology - BioContextAI is a community hub for agentic biomedical systems
go.nature.com
November 6, 2025 at 6:28 PM
BioContextAI is a community hub for agentic biomedical systems - @puellesv.bsky.social @biocontext.ai go.nature.com/3JmqKux
Yet another reason to build with Python
TLDR; The PSF has made the decision to put our community and our shared diversity, equity, and inclusion values ahead of seeking $1.5M in new revenue. Please read and share. pyfound.blogspot.com/2025/10/NSF-...
🧵
🧵
The official home of the Python Programming Language
www.python.org
October 28, 2025 at 8:23 AM
Yet another reason to build with Python
Reposted by Malte Kuehl
Why does the naked mole rat have the longest lifespan of any rodent, nearly 40 years?
A 30-year long mystery unraveled @ScienceMagazine today!
Its cGAS enzyme in cells has 4 missense mutations that upends its function, promoting DNA repair and suppressing inflammation
www.science.org/doi/10.1126/...
A 30-year long mystery unraveled @ScienceMagazine today!
Its cGAS enzyme in cells has 4 missense mutations that upends its function, promoting DNA repair and suppressing inflammation
www.science.org/doi/10.1126/...
October 9, 2025 at 6:06 PM
Why does the naked mole rat have the longest lifespan of any rodent, nearly 40 years?
A 30-year long mystery unraveled @ScienceMagazine today!
Its cGAS enzyme in cells has 4 missense mutations that upends its function, promoting DNA repair and suppressing inflammation
www.science.org/doi/10.1126/...
A 30-year long mystery unraveled @ScienceMagazine today!
Its cGAS enzyme in cells has 4 missense mutations that upends its function, promoting DNA repair and suppressing inflammation
www.science.org/doi/10.1126/...
Recently, @anthropic.com introduced Claude Skills, including some for the life sciences. But how can you use skills in your own agents that may not support them out of the box?
The answer is our new Skill-to-MCP server. More info below ⬇️
The answer is our new Skill-to-MCP server. More info below ⬇️
🤖🧬 New biomedical MCP server added to the registry:
Skill-To-MCP Server
Check it out at https://biocontext.ai/registry/biocontext-ai/skill-to-mcp
Skill-To-MCP Server
Check it out at https://biocontext.ai/registry/biocontext-ai/skill-to-mcp
October 26, 2025 at 8:13 PM
Recently, @anthropic.com introduced Claude Skills, including some for the life sciences. But how can you use skills in your own agents that may not support them out of the box?
The answer is our new Skill-to-MCP server. More info below ⬇️
The answer is our new Skill-to-MCP server. More info below ⬇️
Reposted by Malte Kuehl
People outside tech starting to realize how quality software and typing/generating code fast are not correlated
June 27, 2025 at 12:55 AM
People outside tech starting to realize how quality software and typing/generating code fast are not correlated
A truly helpful resource for all things omics! Make sure to check out their MCP server, too: biocontext.ai/registry/sae...
September 13, 2025 at 11:02 AM
A truly helpful resource for all things omics! Make sure to check out their MCP server, too: biocontext.ai/registry/sae...
Reposted by Malte Kuehl
It was a great pleasure to collaborate with this team - a quite different perspective on spatial omics, applying lessons from other scientific fields to biomedicine with robust spatial statistics. Thanks to everybody involved!
Tutorial available at: robinsonlabuzh.github.io/pasta/00-hom...
Tutorial available at: robinsonlabuzh.github.io/pasta/00-hom...
We are excited to share the publication of our paper on exploratory spatial statistics for spatial omics data
academic.oup.com/nar/article/...
academic.oup.com/nar/article/...
Harnessing the potential of spatial statistics for spatial omics data with pasta
Abstract. Spatial omics allow for the molecular characterization of cells in their spatial context. Notably, the two main technological streams, imaging-ba
academic.oup.com
September 11, 2025 at 9:11 AM
It was a great pleasure to collaborate with this team - a quite different perspective on spatial omics, applying lessons from other scientific fields to biomedicine with robust spatial statistics. Thanks to everybody involved!
Tutorial available at: robinsonlabuzh.github.io/pasta/00-hom...
Tutorial available at: robinsonlabuzh.github.io/pasta/00-hom...
It was a great pleasure to collaborate with this team - a quite different perspective on spatial omics, applying lessons from other scientific fields to biomedicine with robust spatial statistics. Thanks to everybody involved!
Tutorial available at: robinsonlabuzh.github.io/pasta/00-hom...
Tutorial available at: robinsonlabuzh.github.io/pasta/00-hom...
We are excited to share the publication of our paper on exploratory spatial statistics for spatial omics data
academic.oup.com/nar/article/...
academic.oup.com/nar/article/...
Harnessing the potential of spatial statistics for spatial omics data with pasta
Abstract. Spatial omics allow for the molecular characterization of cells in their spatial context. Notably, the two main technological streams, imaging-ba
academic.oup.com
September 11, 2025 at 9:11 AM
It was a great pleasure to collaborate with this team - a quite different perspective on spatial omics, applying lessons from other scientific fields to biomedicine with robust spatial statistics. Thanks to everybody involved!
Tutorial available at: robinsonlabuzh.github.io/pasta/00-hom...
Tutorial available at: robinsonlabuzh.github.io/pasta/00-hom...
Reposted by Malte Kuehl
💫 The 2025 SIB Innovative Resource Award goes to @scverse.bsky.social 💫
The jury is impressed by the focus of these omics tools on interoperability, usability, and communication. The project’s solid governance and emphasis on open science principles are particularly commendable
#SIBawards #bc2basel
The jury is impressed by the focus of these omics tools on interoperability, usability, and communication. The project’s solid governance and emphasis on open science principles are particularly commendable
#SIBawards #bc2basel
September 9, 2025 at 9:45 AM
💫 The 2025 SIB Innovative Resource Award goes to @scverse.bsky.social 💫
The jury is impressed by the focus of these omics tools on interoperability, usability, and communication. The project’s solid governance and emphasis on open science principles are particularly commendable
#SIBawards #bc2basel
The jury is impressed by the focus of these omics tools on interoperability, usability, and communication. The project’s solid governance and emphasis on open science principles are particularly commendable
#SIBawards #bc2basel
Reposted by Malte Kuehl
Love the social media efforts and community building of @scverse !
https://scverse.org/join/
https://scverse.org/events/
#bc2basel
https://scverse.org/join/
https://scverse.org/events/
#bc2basel
Join scverse
You can also reach us by e-mail for certain matters: [email protected]: core team [email protected]: for matters regarding the next conference [email protected]: steering council (e.g. for questions about sponsorships)
scverse.org
September 9, 2025 at 9:50 AM
Love the social media efforts and community building of @scverse !
https://scverse.org/join/
https://scverse.org/events/
#bc2basel
https://scverse.org/join/
https://scverse.org/events/
#bc2basel
Interesting work by @slobentanzer.bsky.social and team, making BioCypher available through MCP! Check it out on biocontext.ai/registry/bio... or try it in BioContextAI Chat (biocontext.ai/chat, click "cogs" icon to add the remote MCP server).
🤖🧬 New biomedical MCP server added to the registry:
BioCypher Knowledge Graph MCP
Check it out at https://biocontext.ai/registry/biocypher/biocypher-mcp
BioCypher Knowledge Graph MCP
Check it out at https://biocontext.ai/registry/biocypher/biocypher-mcp
August 28, 2025 at 3:14 PM
Interesting work by @slobentanzer.bsky.social and team, making BioCypher available through MCP! Check it out on biocontext.ai/registry/bio... or try it in BioContextAI Chat (biocontext.ai/chat, click "cogs" icon to add the remote MCP server).
Interesting thoughts on using specialized small models for agentic systems. Potential to cut cost and build more sustainable and privacy-preserving local-first solutions?
arxiv.org/html/2506.02...
arxiv.org/html/2506.02...
Small Language Models are the Future of Agentic AI
arxiv.org
August 25, 2025 at 6:15 PM
Interesting thoughts on using specialized small models for agentic systems. Potential to cut cost and build more sustainable and privacy-preserving local-first solutions?
arxiv.org/html/2506.02...
arxiv.org/html/2506.02...
Reposted by Malte Kuehl
🤖🧬 New biomedical MCP server added to the registry:
Holy-BIO-MCP's gget server
Check it out at https://biocontext.ai/registry/longevity-genie/gget-mcp
Holy-BIO-MCP's gget server
Check it out at https://biocontext.ai/registry/longevity-genie/gget-mcp
August 13, 2025 at 8:58 PM
🤖🧬 New biomedical MCP server added to the registry:
Holy-BIO-MCP's gget server
Check it out at https://biocontext.ai/registry/longevity-genie/gget-mcp
Holy-BIO-MCP's gget server
Check it out at https://biocontext.ai/registry/longevity-genie/gget-mcp
Reposted by Malte Kuehl
Nature research paper: Pathology-oriented multiplexing enables integrative disease mapping
go.nature.com/3HdZxZG
go.nature.com/3HdZxZG
Pathology-oriented multiplexing enables integrative disease mapping - Nature
Pathology-oriented multiplexing (PathoPlex) represents a framework for widespread access to multiplexed imaging and computational image analysis of clinical specimens at a relatively high throughput and subcellular resolution.
go.nature.com
August 1, 2025 at 12:35 PM
Nature research paper: Pathology-oriented multiplexing enables integrative disease mapping
go.nature.com/3HdZxZG
go.nature.com/3HdZxZG
Reposted by Malte Kuehl
Glad to contribute to this collaborative community platform.
A case study shows MCP servers working together - combining BioContextAI Knowledgebase with our omnipath omnipathdb.org MCP (work in progress) to showcase interoperability. Looking forward to see how the ecosystem evolves!
A case study shows MCP servers working together - combining BioContextAI Knowledgebase with our omnipath omnipathdb.org MCP (work in progress) to showcase interoperability. Looking forward to see how the ecosystem evolves!
Preprint alert 🚨 Do you use chatbots in your work or even build MCP servers and agentic systems yourself?
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
July 31, 2025 at 7:37 AM
Glad to contribute to this collaborative community platform.
A case study shows MCP servers working together - combining BioContextAI Knowledgebase with our omnipath omnipathdb.org MCP (work in progress) to showcase interoperability. Looking forward to see how the ecosystem evolves!
A case study shows MCP servers working together - combining BioContextAI Knowledgebase with our omnipath omnipathdb.org MCP (work in progress) to showcase interoperability. Looking forward to see how the ecosystem evolves!
Reposted by Malte Kuehl
Preprint alert 🚨 Do you use chatbots in your work or even build MCP servers and agentic systems yourself?
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
July 29, 2025 at 12:41 PM
Preprint alert 🚨 Do you use chatbots in your work or even build MCP servers and agentic systems yourself?
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
Preprint alert 🚨 Do you use chatbots in your work or even build MCP servers and agentic systems yourself?
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
July 29, 2025 at 12:41 PM
Preprint alert 🚨 Do you use chatbots in your work or even build MCP servers and agentic systems yourself?
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
Or would you like to find a way to use biomedical tools using natural language?
Then check out biocontext.ai, now out on bioRxiv: www.biorxiv.org/content/10.1...
Reposted by Malte Kuehl
Community-based biomedical context to unlock agentic systems https://www.biorxiv.org/content/10.1101/2025.07.21.665729v1
July 25, 2025 at 5:04 PM
Community-based biomedical context to unlock agentic systems https://www.biorxiv.org/content/10.1101/2025.07.21.665729v1
Reposted by Malte Kuehl
🚨Scaling multiplexed imaging 📈 We are excited to share Pathology-oriented multiPlexing (PathoPlex). Now out in @nature.com: www.nature.com/articles/s41...
🧵Walk-through thread below ⬇️
🧵Walk-through thread below ⬇️
July 18, 2025 at 1:31 PM
🚨Scaling multiplexed imaging 📈 We are excited to share Pathology-oriented multiPlexing (PathoPlex). Now out in @nature.com: www.nature.com/articles/s41...
🧵Walk-through thread below ⬇️
🧵Walk-through thread below ⬇️