Dirk Baker
@dhelmrich.bsky.social
Doctor in Computational Engineering from University of Iceland 🇮🇸 - currently RSE at Helmholtz Centre for Environmental Research 🇩🇪
I express my work-related opinions and announcements here.
ORCID: 0000-0003-1542-1062 | https://www.dirkbaker.eu/
I express my work-related opinions and announcements here.
ORCID: 0000-0003-1542-1062 | https://www.dirkbaker.eu/
Important aspects highlighted here, but: If the general public is as new to the topic as this public-facing video indicates, then it is quite a sad conclusion to years of public information campaigns.
Mira Pöhlker vom @tropos-de.bsky.social in der WISO Doku des @zdfde.bsky.social - Hier zum Nachschauen: www.zdf.de/play/dokus/w...
November 11, 2025 at 10:43 AM
Important aspects highlighted here, but: If the general public is as new to the topic as this public-facing video indicates, then it is quite a sad conclusion to years of public information campaigns.
Reposted by Dirk Baker
☀️🌾 Virtual world coupling with #photosynthesis evaluation for synthetic data production
doi.org/10.1093/insi... #PlantScience #FSPM #CPlantBox #UnrealEngine
doi.org/10.1093/insi... #PlantScience #FSPM #CPlantBox #UnrealEngine
October 23, 2025 at 3:10 PM
☀️🌾 Virtual world coupling with #photosynthesis evaluation for synthetic data production
doi.org/10.1093/insi... #PlantScience #FSPM #CPlantBox #UnrealEngine
doi.org/10.1093/insi... #PlantScience #FSPM #CPlantBox #UnrealEngine
Coding is seldomly the part that gets you published. However, it is important for the longevity of a software - even if not explicitly defined as software "product" in the classical sense. I am migrating the Unreal Engine part of Synavis to a more modular standard: www.dirkbaker.eu#20251005-mig...
Dirk Baker
Dirk Baker - Research & Software Engineer - Personal Website
www.dirkbaker.eu
October 8, 2025 at 4:03 PM
Coding is seldomly the part that gets you published. However, it is important for the longevity of a software - even if not explicitly defined as software "product" in the classical sense. I am migrating the Unreal Engine part of Synavis to a more modular standard: www.dirkbaker.eu#20251005-mig...
Reposted by Dirk Baker
Very pleased to see our paper published in its final form! Many thanks to our collaborators and funders at PhotoBoost🙏🏽 Prof. Stephen Long developed the first version of this model and was a wonderfully kind and knowledgeable mentor. This work wouldn’t have been possible without his guidance.
☀️ 🌾 Using e-Photosynthesis to predict optimal protein allocation for maximum carbon assimilation in rice
by @svijayakumar32.bsky.social Yu Wang, Hsiang Chun Lin @ecarmosilva.bsky.social Stephen Long and Samuel Taylor
doi.org/10.1093/insi... #photosynthesis #PlantScience
by @svijayakumar32.bsky.social Yu Wang, Hsiang Chun Lin @ecarmosilva.bsky.social Stephen Long and Samuel Taylor
doi.org/10.1093/insi... #photosynthesis #PlantScience
October 5, 2025 at 6:07 PM
Very pleased to see our paper published in its final form! Many thanks to our collaborators and funders at PhotoBoost🙏🏽 Prof. Stephen Long developed the first version of this model and was a wonderfully kind and knowledgeable mentor. This work wouldn’t have been possible without his guidance.
Slightly longer version of my video production statement: www.dirkbaker.eu#20251002-vid...
Dirk Baker
Dirk Baker - Research & Software Engineer - Personal Website
www.dirkbaker.eu
October 2, 2025 at 3:42 PM
Slightly longer version of my video production statement: www.dirkbaker.eu#20251002-vid...
Reposted by Dirk Baker
Check out this video summary of the article Virtual World Coupling with #Photosynthesis Evaluation for Synthetic Data Production by @dhelmrich.bsky.social. Access it at
doi.org/10.6084/m9.f... #PlantScience
doi.org/10.6084/m9.f... #PlantScience
Video to: Virtual World Coupling with Photosynthesis Evaluation for Synthetic Data Production
In this work, we couple the functional-structural plant model CPlantBox to the Unreal Engine by exploiting the implemented lighting pipeline to evaluate light influx on the plant surface. There are…
doi.org
October 1, 2025 at 4:29 PM
Check out this video summary of the article Virtual World Coupling with #Photosynthesis Evaluation for Synthetic Data Production by @dhelmrich.bsky.social. Access it at
doi.org/10.6084/m9.f... #PlantScience
doi.org/10.6084/m9.f... #PlantScience
My PhD studies immediately pushed me to writing papers. I learned very early that videos as an additional source of information are very valuable. How many people watch? Not many. However, if it helps a selected few to gain access to the information we write about, great! www.youtube.com/@dirkbaker
September 23, 2025 at 5:53 AM
My PhD studies immediately pushed me to writing papers. I learned very early that videos as an additional source of information are very valuable. How many people watch? Not many. However, if it helps a selected few to gain access to the information we write about, great! www.youtube.com/@dirkbaker
Can Virtual World Models accurately inform synthetic data?
We coupled CPlantBox with Unreal Engine to simulate light influx on plant surfaces. The impact? Demonstrated versatility for AI
Read our paper: doi.org/10.1093/insi...
Video: doi.org/10.6084/m9.f...
#SyntheticData #PlantScience #UnrealEngine
We coupled CPlantBox with Unreal Engine to simulate light influx on plant surfaces. The impact? Demonstrated versatility for AI
Read our paper: doi.org/10.1093/insi...
Video: doi.org/10.6084/m9.f...
#SyntheticData #PlantScience #UnrealEngine
Validate User
doi.org
September 22, 2025 at 7:54 PM
Can Virtual World Models accurately inform synthetic data?
We coupled CPlantBox with Unreal Engine to simulate light influx on plant surfaces. The impact? Demonstrated versatility for AI
Read our paper: doi.org/10.1093/insi...
Video: doi.org/10.6084/m9.f...
#SyntheticData #PlantScience #UnrealEngine
We coupled CPlantBox with Unreal Engine to simulate light influx on plant surfaces. The impact? Demonstrated versatility for AI
Read our paper: doi.org/10.1093/insi...
Video: doi.org/10.6084/m9.f...
#SyntheticData #PlantScience #UnrealEngine
Reposted by Dirk Baker
📢The Call for Papers for in silico Plant’s Special Issue “Simulating plant-plant interactions and community dynamics” is now open
🔬 Editor: Andrew Friend (University of Cambridge)
ℹ️ Find out more: academic.oup.com/insilicoplan... #PlantScience #DGVM
🔬 Editor: Andrew Friend (University of Cambridge)
ℹ️ Find out more: academic.oup.com/insilicoplan... #PlantScience #DGVM
September 17, 2025 at 3:10 PM
📢The Call for Papers for in silico Plant’s Special Issue “Simulating plant-plant interactions and community dynamics” is now open
🔬 Editor: Andrew Friend (University of Cambridge)
ℹ️ Find out more: academic.oup.com/insilicoplan... #PlantScience #DGVM
🔬 Editor: Andrew Friend (University of Cambridge)
ℹ️ Find out more: academic.oup.com/insilicoplan... #PlantScience #DGVM
1/2 Recently published by Lochocki and McGrath: A mechanistic model of C3 plant (FvCB) which has seen frequent use in literature yields some key challenges when it comes to the interpretation of the plant photosynthetic parameters. See the full story here: doi.org/10.1093/insi...
Widely used variants of the Farquhar-von-Caemmerer-Berry model can cause errors in parameter estimation
Abstract. The Farquhar-von-Caemmerer-Berry (FvCB) model is the most widely used mechanistic model of C3 net CO2 assimilation, and it plays a significant ro
doi.org
September 17, 2025 at 9:22 AM
1/2 Recently published by Lochocki and McGrath: A mechanistic model of C3 plant (FvCB) which has seen frequent use in literature yields some key challenges when it comes to the interpretation of the plant photosynthetic parameters. See the full story here: doi.org/10.1093/insi...
Just found this: rdcu.be/eGCek
Coppolino et al. (2025) showcase a datacentric view on digital twin modelling. This goes beyond a typical implementation of the digital twin - it explores the implementation in Gaia-X, the European initiative to build a federated and interoperable service framework.
Coppolino et al. (2025) showcase a datacentric view on digital twin modelling. This goes beyond a typical implementation of the digital twin - it explores the implementation in Gaia-X, the European initiative to build a federated and interoperable service framework.
Simulation as a Service in Data Spaces: A Digital Twin-based Approach
rdcu.be
September 16, 2025 at 7:16 AM
Just found this: rdcu.be/eGCek
Coppolino et al. (2025) showcase a datacentric view on digital twin modelling. This goes beyond a typical implementation of the digital twin - it explores the implementation in Gaia-X, the European initiative to build a federated and interoperable service framework.
Coppolino et al. (2025) showcase a datacentric view on digital twin modelling. This goes beyond a typical implementation of the digital twin - it explores the implementation in Gaia-X, the European initiative to build a federated and interoperable service framework.
Reposted by Dirk Baker
🌽 A data-driven sensitivity analysis of #maize stalk #models reveals the dominant factors influencing stalk strength
doi.org/10.1093/insi... #PlantScience
doi.org/10.1093/insi... #PlantScience
August 26, 2025 at 4:29 PM
🌽 A data-driven sensitivity analysis of #maize stalk #models reveals the dominant factors influencing stalk strength
doi.org/10.1093/insi... #PlantScience
doi.org/10.1093/insi... #PlantScience
Reposted by Dirk Baker
Satellite data, especially solar-induced chlorophyll fluorescence, accurately tracks plant growth and carbon uptake, highlighting physiology's key role in carbon cycling. This study boosts our understanding of global carbon dynamics.👇
@forestecosyst.bsky.social
www.sciencedirect.com/science/arti...
@forestecosyst.bsky.social
www.sciencedirect.com/science/arti...
August 27, 2025 at 2:50 AM
Satellite data, especially solar-induced chlorophyll fluorescence, accurately tracks plant growth and carbon uptake, highlighting physiology's key role in carbon cycling. This study boosts our understanding of global carbon dynamics.👇
@forestecosyst.bsky.social
www.sciencedirect.com/science/arti...
@forestecosyst.bsky.social
www.sciencedirect.com/science/arti...
Reposted by Dirk Baker
💧SPECIAL ISSUE RESEARCH💧
🍇 Grapevine shows hydraulic vulnerability segmentation within the scion *and* rootstock. Rootstock choice impacts scion drought resistance by modifying leaf minimum conductance without altering embolism resistance- Flor et al.
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
🍇 Grapevine shows hydraulic vulnerability segmentation within the scion *and* rootstock. Rootstock choice impacts scion drought resistance by modifying leaf minimum conductance without altering embolism resistance- Flor et al.
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
August 22, 2025 at 2:58 PM
💧SPECIAL ISSUE RESEARCH💧
🍇 Grapevine shows hydraulic vulnerability segmentation within the scion *and* rootstock. Rootstock choice impacts scion drought resistance by modifying leaf minimum conductance without altering embolism resistance- Flor et al.
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
🍇 Grapevine shows hydraulic vulnerability segmentation within the scion *and* rootstock. Rootstock choice impacts scion drought resistance by modifying leaf minimum conductance without altering embolism resistance- Flor et al.
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
Reposted by Dirk Baker
Save the dates!
11th International #FSPM 2026 Conference
Montpellier, France | October 12th to 16th, 2026
www.fspm2026.org @PlantScience
11th International #FSPM 2026 Conference
Montpellier, France | October 12th to 16th, 2026
www.fspm2026.org @PlantScience
August 22, 2025 at 3:10 PM
Save the dates!
11th International #FSPM 2026 Conference
Montpellier, France | October 12th to 16th, 2026
www.fspm2026.org @PlantScience
11th International #FSPM 2026 Conference
Montpellier, France | October 12th to 16th, 2026
www.fspm2026.org @PlantScience
Reposted by Dirk Baker
Glacier calving, in which huge chunks of ice break free and crash into the sea, generates large waves that push warmer water to the surface. A new study now shows that this mechanism is amplifying glacial melt.
ethz.ch/en/news-and-...
ethz.ch/en/news-and-...
Falling ice drives glacial retreat in Greenland
The Greenland ice sheet is melting at an increasing rate, a process accelerated by glacier calving, in which huge chunks of ice break free and crash into the sea, generating large waves that push warm...
ethz.ch
August 14, 2025 at 4:24 AM
Glacier calving, in which huge chunks of ice break free and crash into the sea, generates large waves that push warmer water to the surface. A new study now shows that this mechanism is amplifying glacial melt.
ethz.ch/en/news-and-...
ethz.ch/en/news-and-...
Reposted by Dirk Baker
Angesichts wirtschaftlicher und sicherheitspolitischer Herausforderungen droht der Schutz der #Biodiversität aus dem Blick zu geraten. Forschende wie Josef Settele vom #UFZ mahnen deshalb eindringlich, die Möglichkeiten der EU-Renaturierungs-Verordnung (NRR), zu nutzen.
www.ufz.de/index.php?de...
www.ufz.de/index.php?de...
July 3, 2025 at 12:23 PM
Angesichts wirtschaftlicher und sicherheitspolitischer Herausforderungen droht der Schutz der #Biodiversität aus dem Blick zu geraten. Forschende wie Josef Settele vom #UFZ mahnen deshalb eindringlich, die Möglichkeiten der EU-Renaturierungs-Verordnung (NRR), zu nutzen.
www.ufz.de/index.php?de...
www.ufz.de/index.php?de...
Uncertain times? Also for researchers. The @ufz.de has started backing up critical databases - in fear of them being deleted or otherwise made unavailable. This endeavor is only possible because of the @helmholtz.de Federated IT: www.hifis.net/use-case/202...
Backing Up Critical US Databases
In light of the uncertainty surrounding the sustainability of key databases in the Earth and Environment domain, UFZ created a local backup using Helmholtz Cloud services.
www.hifis.net
June 25, 2025 at 10:42 AM
Uncertain times? Also for researchers. The @ufz.de has started backing up critical databases - in fear of them being deleted or otherwise made unavailable. This endeavor is only possible because of the @helmholtz.de Federated IT: www.hifis.net/use-case/202...
Reposted by Dirk Baker
💻 Simulating rhizodeposition patterns around growing and exuding root systems
doi.org/10.1093/insi... #roots #model #PlantScience
doi.org/10.1093/insi... #roots #model #PlantScience
June 20, 2025 at 4:29 PM
💻 Simulating rhizodeposition patterns around growing and exuding root systems
doi.org/10.1093/insi... #roots #model #PlantScience
doi.org/10.1093/insi... #roots #model #PlantScience
I'm a doctor! My thesis was defended on the 22nd May at the University of Iceland! I am grateful for this opportunity and this shows the spirit of international collaboration that is the lifeblood of science and engineering. Grateful to everybody involved! 🇮🇸 🇩🇪 🇪🇺
May 29, 2025 at 10:28 AM
I'm a doctor! My thesis was defended on the 22nd May at the University of Iceland! I am grateful for this opportunity and this shows the spirit of international collaboration that is the lifeblood of science and engineering. Grateful to everybody involved! 🇮🇸 🇩🇪 🇪🇺
Reposted by Dirk Baker
The 2nd edition of 𝐈𝐧𝐭𝐞𝐫𝐧𝐚𝐭𝐢𝐨𝐧𝐚𝐥 𝐒𝐮𝐦𝐦𝐞𝐫 𝐒𝐜𝐡𝐨𝐨𝐥 𝐨𝐧 𝐌𝐨𝐝𝐞𝐥𝐢𝐧𝐠 𝐖𝐚𝐭𝐞𝐫 𝐅𝐥𝐮𝐱𝐞𝐬 𝐢𝐧 𝐭𝐡𝐞 𝐒𝐨𝐢𝐥-𝐏𝐥𝐚𝐧𝐭 𝐒𝐲𝐬𝐭𝐞𝐦 will be held at UCLouvain, BE, 8-12 Sept 2025.
The course will focus on water flow in the soil-rhizosphere-plant system, plant physiology and rhizosphere hydraulics.
www.uclouvain.be/en/research-...
The course will focus on water flow in the soil-rhizosphere-plant system, plant physiology and rhizosphere hydraulics.
www.uclouvain.be/en/research-...
April 8, 2025 at 6:17 PM
The 2nd edition of 𝐈𝐧𝐭𝐞𝐫𝐧𝐚𝐭𝐢𝐨𝐧𝐚𝐥 𝐒𝐮𝐦𝐦𝐞𝐫 𝐒𝐜𝐡𝐨𝐨𝐥 𝐨𝐧 𝐌𝐨𝐝𝐞𝐥𝐢𝐧𝐠 𝐖𝐚𝐭𝐞𝐫 𝐅𝐥𝐮𝐱𝐞𝐬 𝐢𝐧 𝐭𝐡𝐞 𝐒𝐨𝐢𝐥-𝐏𝐥𝐚𝐧𝐭 𝐒𝐲𝐬𝐭𝐞𝐦 will be held at UCLouvain, BE, 8-12 Sept 2025.
The course will focus on water flow in the soil-rhizosphere-plant system, plant physiology and rhizosphere hydraulics.
www.uclouvain.be/en/research-...
The course will focus on water flow in the soil-rhizosphere-plant system, plant physiology and rhizosphere hydraulics.
www.uclouvain.be/en/research-...
Reposted by Dirk Baker
New paper out in @plantphys.bsky.social :
Juan Baca Cabrera combined #field & #lab/ #structural & #functional / #invivo & #insilico data to analyse how root #hydraulic traits decreased in German winter #wheat cultivars over 100 years of breeding
academic.oup.com/plphys/advan...
Juan Baca Cabrera combined #field & #lab/ #structural & #functional / #invivo & #insilico data to analyse how root #hydraulic traits decreased in German winter #wheat cultivars over 100 years of breeding
academic.oup.com/plphys/advan...
April 25, 2025 at 7:01 AM
New paper out in @plantphys.bsky.social :
Juan Baca Cabrera combined #field & #lab/ #structural & #functional / #invivo & #insilico data to analyse how root #hydraulic traits decreased in German winter #wheat cultivars over 100 years of breeding
academic.oup.com/plphys/advan...
Juan Baca Cabrera combined #field & #lab/ #structural & #functional / #invivo & #insilico data to analyse how root #hydraulic traits decreased in German winter #wheat cultivars over 100 years of breeding
academic.oup.com/plphys/advan...
Reposted by Dirk Baker
Deyi Hou et al. in Science
Global soil pollution by toxic metals threatens agriculture and human health
www.science.org/doi/10.1126/...
Global soil pollution by toxic metals threatens agriculture and human health
www.science.org/doi/10.1126/...
Global soil pollution by toxic metals threatens agriculture and human health
Toxic metal pollution is ubiquitous in soils, yet its worldwide distribution is unknown. We analyzed a global database of soil pollution by arsenic, cadmium, cobalt, chromium, copper, nickel, and lead...
www.science.org
April 19, 2025 at 9:54 AM
Deyi Hou et al. in Science
Global soil pollution by toxic metals threatens agriculture and human health
www.science.org/doi/10.1126/...
Global soil pollution by toxic metals threatens agriculture and human health
www.science.org/doi/10.1126/...
Reposted by Dirk Baker
Congratulations to lab member Gabi Alves Ferreira who lead us in this fun project! She modeled how range shifts of neotropical frogs with climate change will change phylogenetic diversity and endemism in the new communities. So great to see this published #ProudPI 💪🐸 www.nature.com/articles/s41...
Climate change is projected to shrink phylogenetic endemism of Neotropical frogs - Nature Communications
Climate change is a major threat to biodiversity. This study predicts that climate change will reshape Neotropical frog diversity, causing losses in phylogenetic diversity and phylogenetic endemism, w...
www.nature.com
April 19, 2025 at 3:57 PM
Congratulations to lab member Gabi Alves Ferreira who lead us in this fun project! She modeled how range shifts of neotropical frogs with climate change will change phylogenetic diversity and endemism in the new communities. So great to see this published #ProudPI 💪🐸 www.nature.com/articles/s41...
Synavis is back 👉 link.springer.com/chapter/10.1...
Our conference paper is now online! HPC use-cases for plant science, and a case for having exclusive-use visualization nodes for larger-scale use-cases that involve rendering. Especially in times of AI factories and Tensor chips.
Our conference paper is now online! HPC use-cases for plant science, and a case for having exclusive-use visualization nodes for larger-scale use-cases that involve rendering. Especially in times of AI factories and Tensor chips.
Adapting Agricultural Virtual Environments in Game Engines to Improve HPC Accessibility
E-infrastructures deliver basic supercomputing and storage capabilities but can benefit from innovative higher-level services that enable use-cases in critical domains, such as environmental and agric...
link.springer.com
April 1, 2025 at 5:23 AM
Synavis is back 👉 link.springer.com/chapter/10.1...
Our conference paper is now online! HPC use-cases for plant science, and a case for having exclusive-use visualization nodes for larger-scale use-cases that involve rendering. Especially in times of AI factories and Tensor chips.
Our conference paper is now online! HPC use-cases for plant science, and a case for having exclusive-use visualization nodes for larger-scale use-cases that involve rendering. Especially in times of AI factories and Tensor chips.