Colin Davenport
@colindaven.bsky.social
Bioinformatics, genomics, metagenomics, nextflow and sequencing.
Reposted by Colin Davenport
Job for data scientists: Cluster of excellence Future Forests searching for a full-time permanent data steward associated with the Central Data Facility @uni-freiburg.de
uni-freiburg.de/en/job/00004...
uni-freiburg.de/en/job/00004...
August 15, 2025 at 8:50 AM
Job for data scientists: Cluster of excellence Future Forests searching for a full-time permanent data steward associated with the Central Data Facility @uni-freiburg.de
uni-freiburg.de/en/job/00004...
uni-freiburg.de/en/job/00004...
Reposted by Colin Davenport
Our high-precision metagenomic strain caller, PHLAME, is now published in Cell Reports!! www.cell.com/cell-reports...
PHLAME works on tough sample types -- including those with coexisting strains of a species and low depth.
PHLAME works on tough sample types -- including those with coexisting strains of a species and low depth.
August 15, 2025 at 4:33 PM
Our high-precision metagenomic strain caller, PHLAME, is now published in Cell Reports!! www.cell.com/cell-reports...
PHLAME works on tough sample types -- including those with coexisting strains of a species and low depth.
PHLAME works on tough sample types -- including those with coexisting strains of a species and low depth.
Reposted by Colin Davenport
Still remember one study where they had "AI" look at photos to diagnose cancer and it had like a 98% or 99% accuracy...
...except all the photos of actual tumors had a ruler next to them for scale. And the algorithm just got really good at spotting rulers in a photograph.
...except all the photos of actual tumors had a ruler next to them for scale. And the algorithm just got really good at spotting rulers in a photograph.
Stop offloading cognitive tasks to "generative AI." Stop using systems w/ "AI" features either inextricably woven through them or prominently displayed at the top to nudge you into their use. Stop *Designing* "AI" tools & integrations that way. Stop building or using "AI" like this. Fucking Stop it.
AI Eroded Doctors’ Ability to Spot Cancer Within Months in Study
Artificial intelligence, touted for its potential to transform medicine, led to some doctors losing skills after just a few months in a new study.
www.bloomberg.com
August 15, 2025 at 6:00 AM
Still remember one study where they had "AI" look at photos to diagnose cancer and it had like a 98% or 99% accuracy...
...except all the photos of actual tumors had a ruler next to them for scale. And the algorithm just got really good at spotting rulers in a photograph.
...except all the photos of actual tumors had a ruler next to them for scale. And the algorithm just got really good at spotting rulers in a photograph.
Reposted by Colin Davenport
this seems like a very good idea actually
August 15, 2025 at 1:38 PM
this seems like a very good idea actually
Reposted by Colin Davenport
No, I don't think there is any need for you, me or anyone to have access to ChatGPT or CoPilot just to help you plan your kid's birthday party, or find nearby restaurants, or plan your holiday for you, or do your homework for you, or write your book review for you, all to see the world burn.
August 10, 2025 at 3:25 PM
No, I don't think there is any need for you, me or anyone to have access to ChatGPT or CoPilot just to help you plan your kid's birthday party, or find nearby restaurants, or plan your holiday for you, or do your homework for you, or write your book review for you, all to see the world burn.
Reposted by Colin Davenport
For #AncientSiteSunday let's go to Leptis Magna on the coast of Libya. It's one of the best preserved #Roman cities. The city was founded in the 7th century BC by the Phoenicians. In Roman times it became one of the most important...🧵 1/2
🏺 #archaeology
🏺 #archaeology
August 10, 2025 at 5:05 AM
For #AncientSiteSunday let's go to Leptis Magna on the coast of Libya. It's one of the best preserved #Roman cities. The city was founded in the 7th century BC by the Phoenicians. In Roman times it became one of the most important...🧵 1/2
🏺 #archaeology
🏺 #archaeology
Reposted by Colin Davenport
The increasing intermittency of….nuclear power stations:
Source: Financial Times | “Heatwaves test Europe’s electricity system as air conditioning use soars” on.ft.com/4fsSclS
Source: Financial Times | “Heatwaves test Europe’s electricity system as air conditioning use soars” on.ft.com/4fsSclS
August 3, 2025 at 7:15 AM
The increasing intermittency of….nuclear power stations:
Source: Financial Times | “Heatwaves test Europe’s electricity system as air conditioning use soars” on.ft.com/4fsSclS
Source: Financial Times | “Heatwaves test Europe’s electricity system as air conditioning use soars” on.ft.com/4fsSclS
Reposted by Colin Davenport
Reposted by Colin Davenport
Undruggable No More: AI Hits Disordered Proteins, Unlocks Therapy Targets
David Baker’s Nobel Prize-winning lab has successfully designed high affinity binders to disordered proteins, expanding therapeutic access to over 50% of the human proteome
www.genengnews.com/t...
David Baker’s Nobel Prize-winning lab has successfully designed high affinity binders to disordered proteins, expanding therapeutic access to over 50% of the human proteome
www.genengnews.com/t...
Undruggable No More: AI Hits Disordered Proteins, Unlocks Therapy Targets
David Baker’s lab has successfully designed binders to disordered proteins, expanding therapeutic access to over 50% of the human proteome.
www.genengnews.com
July 29, 2025 at 5:22 PM
Undruggable No More: AI Hits Disordered Proteins, Unlocks Therapy Targets
David Baker’s Nobel Prize-winning lab has successfully designed high affinity binders to disordered proteins, expanding therapeutic access to over 50% of the human proteome
www.genengnews.com/t...
David Baker’s Nobel Prize-winning lab has successfully designed high affinity binders to disordered proteins, expanding therapeutic access to over 50% of the human proteome
www.genengnews.com/t...
Reposted by Colin Davenport
🇨🇳 China installed 464 GW of solar capacity in the 12 months to June☀️
That's more than the total EU solar capacity as of 2024 (338 GW) and DOUBLE the total US solar capacity (229 GW).
...in just 12 months
That's more than the total EU solar capacity as of 2024 (338 GW) and DOUBLE the total US solar capacity (229 GW).
...in just 12 months
July 24, 2025 at 11:58 AM
🇨🇳 China installed 464 GW of solar capacity in the 12 months to June☀️
That's more than the total EU solar capacity as of 2024 (338 GW) and DOUBLE the total US solar capacity (229 GW).
...in just 12 months
That's more than the total EU solar capacity as of 2024 (338 GW) and DOUBLE the total US solar capacity (229 GW).
...in just 12 months
Reposted by Colin Davenport
One in five children in Gaza is malnourished, UN aid agency says
One in five children in Gaza is malnourished, UN aid agency says
The UN agency for Palestinians says it has thousands of truckloads of supplies near Gaza which it wants to deliver.
www.bbc.com
July 24, 2025 at 5:20 PM
One in five children in Gaza is malnourished, UN aid agency says
Reposted by Colin Davenport
Structural basis for promoter recognition and transcription factor binding and release in human mitochondria: Molecular Cell www.cell.com/molecular-ce...
Structural basis for promoter recognition and transcription factor binding and release in human mitochondria
Herbine et al. reveal how human mitochondrial RNA polymerase and its partner factors
coordinate transcription initiation. Structural snapshots capture key steps from promoter
binding and melting to RN...
www.cell.com
July 24, 2025 at 3:12 PM
Structural basis for promoter recognition and transcription factor binding and release in human mitochondria: Molecular Cell www.cell.com/molecular-ce...
Reposted by Colin Davenport
Immer weniger Wirkstoffe sind im Pflanzenschutz zugelassen, biologische Alternativen kaum verfügbar.
Ein Erfolg für Umwelt- und Verbraucherschutz einerseits, doch für viele Kulturen gefährdet es die Ernährungssouveränität. Neuer Beitrag von @janmandelkow.bsky.social jetzt im Blog:
Ein Erfolg für Umwelt- und Verbraucherschutz einerseits, doch für viele Kulturen gefährdet es die Ernährungssouveränität. Neuer Beitrag von @janmandelkow.bsky.social jetzt im Blog:
Pflanzenschutz im Wandel: Wirkstoffverlust und seine Folgen - Progressive Agrarwende
Immer weniger chemisch-synthetische Wirkstoffe werden für den Pflanzenschutz zugelassen; auch die Zulassung alternativer biologischer Wirkstoffe lässt auf sich warten. Was zunächst wie ein Erfolg für ...
progressive-agrarwende.org
July 21, 2025 at 1:58 PM
Immer weniger Wirkstoffe sind im Pflanzenschutz zugelassen, biologische Alternativen kaum verfügbar.
Ein Erfolg für Umwelt- und Verbraucherschutz einerseits, doch für viele Kulturen gefährdet es die Ernährungssouveränität. Neuer Beitrag von @janmandelkow.bsky.social jetzt im Blog:
Ein Erfolg für Umwelt- und Verbraucherschutz einerseits, doch für viele Kulturen gefährdet es die Ernährungssouveränität. Neuer Beitrag von @janmandelkow.bsky.social jetzt im Blog:
Reposted by Colin Davenport
When someone asks what parenting be like… 😂🤣
🐵 🥰
🐵 🥰
July 20, 2025 at 1:55 AM
When someone asks what parenting be like… 😂🤣
🐵 🥰
🐵 🥰
Reposted by Colin Davenport
A study in Nature Communications used AI to mine global venom proteomes and discovered novel peptides with antimicrobial activity. Several candidates showed efficacy against drug-resistant bacteria in laboratory and animal tests. go.nature.com/4f0zYb4 #medsky 🧪
July 19, 2025 at 10:28 PM
A study in Nature Communications used AI to mine global venom proteomes and discovered novel peptides with antimicrobial activity. Several candidates showed efficacy against drug-resistant bacteria in laboratory and animal tests. go.nature.com/4f0zYb4 #medsky 🧪
Reposted by Colin Davenport
AlphaFold is great, but contrary to public opinion it has not completely solved the protein folding problem. Much work remains to be done.
clauswilke.substack.com/p/no-alphafo...
clauswilke.substack.com/p/no-alphafo...
No, AlphaFold has not completely solved protein folding
Biology is hard. Yes, even for AI.
clauswilke.substack.com
July 12, 2025 at 6:19 PM
AlphaFold is great, but contrary to public opinion it has not completely solved the protein folding problem. Much work remains to be done.
clauswilke.substack.com/p/no-alphafo...
clauswilke.substack.com/p/no-alphafo...
Reposted by Colin Davenport
Over the last couple of years I have been writing individual chapters of what I call
𝗔 𝗦𝗵𝗼𝗿𝘁 𝗛𝗶𝘀𝘁𝗼𝗿𝘆 𝗼𝗳 𝗣𝗹𝗮𝗻𝘁 𝗦𝗰𝗶𝗲𝗻𝗰𝗲
Each chapter covers a specific, basic, but for some reason special and interesting aspect of #PlantScience research.
Have a look here 👇🧵
𝗔 𝗦𝗵𝗼𝗿𝘁 𝗛𝗶𝘀𝘁𝗼𝗿𝘆 𝗼𝗳 𝗣𝗹𝗮𝗻𝘁 𝗦𝗰𝗶𝗲𝗻𝗰𝗲
Each chapter covers a specific, basic, but for some reason special and interesting aspect of #PlantScience research.
Have a look here 👇🧵
May 17, 2025 at 2:18 PM
Over the last couple of years I have been writing individual chapters of what I call
𝗔 𝗦𝗵𝗼𝗿𝘁 𝗛𝗶𝘀𝘁𝗼𝗿𝘆 𝗼𝗳 𝗣𝗹𝗮𝗻𝘁 𝗦𝗰𝗶𝗲𝗻𝗰𝗲
Each chapter covers a specific, basic, but for some reason special and interesting aspect of #PlantScience research.
Have a look here 👇🧵
𝗔 𝗦𝗵𝗼𝗿𝘁 𝗛𝗶𝘀𝘁𝗼𝗿𝘆 𝗼𝗳 𝗣𝗹𝗮𝗻𝘁 𝗦𝗰𝗶𝗲𝗻𝗰𝗲
Each chapter covers a specific, basic, but for some reason special and interesting aspect of #PlantScience research.
Have a look here 👇🧵
Reposted by Colin Davenport
We released another 500 DNA methylation datasets for ATCC Genome Portal reference genomes - bringing us up to 2,000 microbes now with that data and on track to have all 6,000+ microbes in the AGP paired with methylation info. What data? this data. (more details below 👇)
July 11, 2025 at 4:15 PM
We released another 500 DNA methylation datasets for ATCC Genome Portal reference genomes - bringing us up to 2,000 microbes now with that data and on track to have all 6,000+ microbes in the AGP paired with methylation info. What data? this data. (more details below 👇)
Reposted by Colin Davenport
👀 Consider establishing a research programme at the John Innes Centre in Norwich, UK (@johninnescentre.bsky.social) and join a thriving community of scientists working on plant-associated microbe interactions.
New Independent Fellowship position in Microbiology to launch your lab in our department @johninnescentre.bsky.social (UK). We are conducting a broad search in the area of plant-associated microbial interactions. Message me if you have any questions.
Apply here: www.jic.ac.uk/vacancies/in...
Apply here: www.jic.ac.uk/vacancies/in...
Independent Fellowship in Plant-Associated Microbial Interactions | John Innes Centre
An exciting opportunity for an Independent Fellowship in Plant-Associated Microbial Interactions has arisen at the John Innes Centre. To read the full job description for this role…
www.jic.ac.uk
July 10, 2025 at 2:14 PM
👀 Consider establishing a research programme at the John Innes Centre in Norwich, UK (@johninnescentre.bsky.social) and join a thriving community of scientists working on plant-associated microbe interactions.
Reposted by Colin Davenport
2035: All scientific thinking is done by agentic AI but labs are not yet fully automated
The last postdoc on earth is paid $55k a year to generate the global supply of cell culture data by hand
100,000 papers are AI-generated about each new datapoint
The h-index singularity
The last postdoc on earth is paid $55k a year to generate the global supply of cell culture data by hand
100,000 papers are AI-generated about each new datapoint
The h-index singularity
July 10, 2025 at 2:45 PM
2035: All scientific thinking is done by agentic AI but labs are not yet fully automated
The last postdoc on earth is paid $55k a year to generate the global supply of cell culture data by hand
100,000 papers are AI-generated about each new datapoint
The h-index singularity
The last postdoc on earth is paid $55k a year to generate the global supply of cell culture data by hand
100,000 papers are AI-generated about each new datapoint
The h-index singularity
Reposted by Colin Davenport
The Western Mediterranean has been record warm recently, shown here for the June averages from ERA5.
This much warmth in the Mediterranean may predict a brutally hot summer for Europe.
1/ 🧵🧪🌊
This much warmth in the Mediterranean may predict a brutally hot summer for Europe.
1/ 🧵🧪🌊
July 8, 2025 at 9:31 AM
The Western Mediterranean has been record warm recently, shown here for the June averages from ERA5.
This much warmth in the Mediterranean may predict a brutally hot summer for Europe.
1/ 🧵🧪🌊
This much warmth in the Mediterranean may predict a brutally hot summer for Europe.
1/ 🧵🧪🌊
Reposted by Colin Davenport
Come join us in Wageningen for awesome plant developmental biology!!!
🌱 Passionate About Plant Development?
Join the "Summer School", a dynamic three-day intensive program tailored for enthusiastic PhD students and postdocs eager to deepen their understanding of plant developmental biology. Register here: www.graduateschool-eps.info/events/eps-s...
Join the "Summer School", a dynamic three-day intensive program tailored for enthusiastic PhD students and postdocs eager to deepen their understanding of plant developmental biology. Register here: www.graduateschool-eps.info/events/eps-s...
July 7, 2025 at 5:27 PM
Come join us in Wageningen for awesome plant developmental biology!!!
Reposted by Colin Davenport
oh look
"What was supposed to save money had, instead, caused a host of problems."
www.bbc.co.uk/news/article...
"What was supposed to save money had, instead, caused a host of problems."
www.bbc.co.uk/news/article...
'I'm being paid to fix issues caused by AI'
Businesses that rush to use AI to write content or computer code, often have to pay humans to fix it.
www.bbc.co.uk
July 4, 2025 at 1:01 PM
oh look
"What was supposed to save money had, instead, caused a host of problems."
www.bbc.co.uk/news/article...
"What was supposed to save money had, instead, caused a host of problems."
www.bbc.co.uk/news/article...
Reposted by Colin Davenport
No, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no... Just, NO!
"At FDA we're accelerating drug approvals so that you don't need to use primates or even animal models. You can do the drug approvals very, very quickly with AI."
July 1, 2025 at 7:13 PM
No, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no, no... Just, NO!
Reposted by Colin Davenport
