Fotis Psomopoulos
@fpsom.bsky.social
Doing Bioinformatics and ML @ CERTH, Thessaloníki, GR, fan of training, Open Science and e-infras. Opinions my own. (he / him)
Mastodon @fopsom@genomic.social
Mastodon @fopsom@genomic.social
Reposted by Fotis Psomopoulos
How can Europe's research institutions collaborate to deal with global issues such as food safety, water scarcity, and biodiversity loss?
Coordinated by @lifewatcheric.bsky.social, European RIs state their commitment to transform scientific cooperation into actionable policy and robust innovation.
Coordinated by @lifewatcheric.bsky.social, European RIs state their commitment to transform scientific cooperation into actionable policy and robust innovation.
November 5, 2025 at 9:43 AM
How can Europe's research institutions collaborate to deal with global issues such as food safety, water scarcity, and biodiversity loss?
Coordinated by @lifewatcheric.bsky.social, European RIs state their commitment to transform scientific cooperation into actionable policy and robust innovation.
Coordinated by @lifewatcheric.bsky.social, European RIs state their commitment to transform scientific cooperation into actionable policy and robust innovation.
Reposted by Fotis Psomopoulos
🚀 Build sustainable, reproducible research software!
Learn principles & hands-on practices of open, high-quality, scientific software development at the S³ School 🗓️ 14–21 January 2026, #LAPP, Annecy🇫🇷
📅 Apply by 14 Nov: indico.in2p3.fr/event/36319
Supported by #EVERSE & @oscarsproject.bsky.social
Learn principles & hands-on practices of open, high-quality, scientific software development at the S³ School 🗓️ 14–21 January 2026, #LAPP, Annecy🇫🇷
📅 Apply by 14 Nov: indico.in2p3.fr/event/36319
Supported by #EVERSE & @oscarsproject.bsky.social
October 14, 2025 at 5:00 PM
🚀 Build sustainable, reproducible research software!
Learn principles & hands-on practices of open, high-quality, scientific software development at the S³ School 🗓️ 14–21 January 2026, #LAPP, Annecy🇫🇷
📅 Apply by 14 Nov: indico.in2p3.fr/event/36319
Supported by #EVERSE & @oscarsproject.bsky.social
Learn principles & hands-on practices of open, high-quality, scientific software development at the S³ School 🗓️ 14–21 January 2026, #LAPP, Annecy🇫🇷
📅 Apply by 14 Nov: indico.in2p3.fr/event/36319
Supported by #EVERSE & @oscarsproject.bsky.social
Reposted by Fotis Psomopoulos
📣 ELIXIR has launched an AI Ecosystem Focus Group bringing together Node experts to address growing challenges 💡 within the scientific #ArtificialIntelligence (AI) and #MachineLearning (ML) field.
Read the news: https://loom.ly/NwfjpgE
Read the news: https://loom.ly/NwfjpgE
October 1, 2025 at 9:01 AM
📣 ELIXIR has launched an AI Ecosystem Focus Group bringing together Node experts to address growing challenges 💡 within the scientific #ArtificialIntelligence (AI) and #MachineLearning (ML) field.
Read the news: https://loom.ly/NwfjpgE
Read the news: https://loom.ly/NwfjpgE
Reposted by Fotis Psomopoulos
📣 ELIXIR has published a position paper on the importance of #OpenData infrastructure for 🌍 European competitiveness in life sciences.
Read the news 👉 https://loom.ly/22XW72k
#ResearchInfrastructure #Science4EU
Read the news 👉 https://loom.ly/22XW72k
#ResearchInfrastructure #Science4EU
June 24, 2025 at 9:01 AM
📣 ELIXIR has published a position paper on the importance of #OpenData infrastructure for 🌍 European competitiveness in life sciences.
Read the news 👉 https://loom.ly/22XW72k
#ResearchInfrastructure #Science4EU
Read the news 👉 https://loom.ly/22XW72k
#ResearchInfrastructure #Science4EU
Reposted by Fotis Psomopoulos
I just ran into a COI: not a digital object identifier (DOI), but a content object identifier, specifically: coilink.org/20.500.12592...
It would be nice if coilink.org explained a bit more about COIs, such as how they are different than / related to DOIs, ARKs, etc.
It would be nice if coilink.org explained a bit more about COIs, such as how they are different than / related to DOIs, ARKs, etc.
COI Link for Building the future of research software as a first-class citizen in science; a global perspective | 20.500.12592/4kvc35t
coilink.org
August 19, 2025 at 2:48 PM
I just ran into a COI: not a digital object identifier (DOI), but a content object identifier, specifically: coilink.org/20.500.12592...
It would be nice if coilink.org explained a bit more about COIs, such as how they are different than / related to DOIs, ARKs, etc.
It would be nice if coilink.org explained a bit more about COIs, such as how they are different than / related to DOIs, ARKs, etc.
Reposted by Fotis Psomopoulos
As the latest step in my non-traditional career, I'm very happy to have been promoted to Research Professor in the Siebel School of Computing and Data Science and the School of Information Sciences at @uofilsystem.bsky.social Urbana-Champaign.
May 16, 2025 at 1:17 PM
As the latest step in my non-traditional career, I'm very happy to have been promoted to Research Professor in the Siebel School of Computing and Data Science and the School of Information Sciences at @uofilsystem.bsky.social Urbana-Champaign.
Reposted by Fotis Psomopoulos
Save the date! Our first #EVERSE webinar is coming up on 15th April at 10 AM CEST. We’ll present results from a recent landscaping survey in research software quality and talk about the roles of indicators and dimensions in #RSQ. See here for more details: indico.cern.ch/event/1531998/
EVERSE Webinar: Building the Landscape of Software Quality and Defining Software Quality Indicators
The EVERSE Work Package 2 "Community-led best practices for developing high-quality research software" is building the Research Software Quality toolkit (RSQKit), a knowledge hub that collects existin...
indico.cern.ch
April 1, 2025 at 3:08 PM
Save the date! Our first #EVERSE webinar is coming up on 15th April at 10 AM CEST. We’ll present results from a recent landscaping survey in research software quality and talk about the roles of indicators and dimensions in #RSQ. See here for more details: indico.cern.ch/event/1531998/
Reposted by Fotis Psomopoulos
💡 The DOME (data, optimisation, model and evaluation) recommendations were developed by the 👨💻 #ELIXIR_MachineLearning Focus Group.
🙌 Publishers of #MachineLearning #LifeScience research are encouraged to adopt the DOME machine learning recommendations!
Read the news 👉 loom.ly/XSOrHus
🙌 Publishers of #MachineLearning #LifeScience research are encouraged to adopt the DOME machine learning recommendations!
Read the news 👉 loom.ly/XSOrHus
March 31, 2025 at 10:15 AM
💡 The DOME (data, optimisation, model and evaluation) recommendations were developed by the 👨💻 #ELIXIR_MachineLearning Focus Group.
🙌 Publishers of #MachineLearning #LifeScience research are encouraged to adopt the DOME machine learning recommendations!
Read the news 👉 loom.ly/XSOrHus
🙌 Publishers of #MachineLearning #LifeScience research are encouraged to adopt the DOME machine learning recommendations!
Read the news 👉 loom.ly/XSOrHus
Reposted by Fotis Psomopoulos
omicsGMF: a multi-tool for dimensionality reduction, batch correction and imputation applied to bulk- and single cell proteomics data. https://www.biorxiv.org/content/10.1101/2025.03.24.644996v1
March 28, 2025 at 2:46 PM
omicsGMF: a multi-tool for dimensionality reduction, batch correction and imputation applied to bulk- and single cell proteomics data. https://www.biorxiv.org/content/10.1101/2025.03.24.644996v1
Reposted by Fotis Psomopoulos
We need your input! The Research Software Infrastructure (RSI) Forum is exploring how #ResearchSoftware intersects with the broader research software ecosystem. Share your thoughts on priority use cases and where you'd like to be involved by 4 April:
👉 Form: forms.gle/8tVGcaDKkeY3...
👉 Form: forms.gle/8tVGcaDKkeY3...
RSI Forum use cases
The Research Software Infrastructure (RSI) Forum is focusing on use cases to explore how different activities related to research software use elements of the research software ecosystem, while also d...
forms.gle
March 26, 2025 at 4:29 PM
We need your input! The Research Software Infrastructure (RSI) Forum is exploring how #ResearchSoftware intersects with the broader research software ecosystem. Share your thoughts on priority use cases and where you'd like to be involved by 4 April:
👉 Form: forms.gle/8tVGcaDKkeY3...
👉 Form: forms.gle/8tVGcaDKkeY3...
Reposted by Fotis Psomopoulos
Amazing to see how our #EVERSE project grew, on the inside and also outside. We had a great time at the general assembly and we’re looking forward to a phase of implementation of our outputs, connecting to communities and strengthen #researchsoftwarequality in Europe and beyond!
March 24, 2025 at 2:59 PM
Amazing to see how our #EVERSE project grew, on the inside and also outside. We had a great time at the general assembly and we’re looking forward to a phase of implementation of our outputs, connecting to communities and strengthen #researchsoftwarequality in Europe and beyond!
Reposted by Fotis Psomopoulos
Reposted by Fotis Psomopoulos
Day 2 at our #EVERSE general assembly wrapped up our parallel sessions and workshops on our #EVERSENetwork, the #RSQKit and other outputs.
March 20, 2025 at 7:26 PM
Day 2 at our #EVERSE general assembly wrapped up our parallel sessions and workshops on our #EVERSENetwork, the #RSQKit and other outputs.
Reposted by Fotis Psomopoulos
We definitely deserve our dinner now with some Spanish tapas and wine🍷¡Chinchin!
March 20, 2025 at 7:26 PM
We definitely deserve our dinner now with some Spanish tapas and wine🍷¡Chinchin!
Reposted by Fotis Psomopoulos
OMAnnotator: a novel approach to building an annotated consensus genome sequence www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/DessimozLab/...
March 13, 2025 at 3:30 PM
OMAnnotator: a novel approach to building an annotated consensus genome sequence www.biorxiv.org/content/10.1... 🧬🖥️🧪 github.com/DessimozLab/...
Reposted by Fotis Psomopoulos
📣 Today marks the kick-off meeting of the new ELIXIR-coordinated @ec.europa.eu project B1MGplus!
The project will support the 🙌 1+MG Initiative and the European cross-border network of 🧬 #genomic and clinical data.
Read the news: b1mgplus.onemilliongenomes.eu/news/b1mgplu...
#DigitalEU #1MGenomes
The project will support the 🙌 1+MG Initiative and the European cross-border network of 🧬 #genomic and clinical data.
Read the news: b1mgplus.onemilliongenomes.eu/news/b1mgplu...
#DigitalEU #1MGenomes
Beyond One Million Genome plus project launches
The Beyond One Million Genome plus (B1MGplus) project is holding its kick-off meeting in Bucharest, Romania from 11-12 March 2025. The new project, funded...
b1mgplus.onemilliongenomes.eu
March 11, 2025 at 11:24 AM
📣 Today marks the kick-off meeting of the new ELIXIR-coordinated @ec.europa.eu project B1MGplus!
The project will support the 🙌 1+MG Initiative and the European cross-border network of 🧬 #genomic and clinical data.
Read the news: b1mgplus.onemilliongenomes.eu/news/b1mgplu...
#DigitalEU #1MGenomes
The project will support the 🙌 1+MG Initiative and the European cross-border network of 🧬 #genomic and clinical data.
Read the news: b1mgplus.onemilliongenomes.eu/news/b1mgplu...
#DigitalEU #1MGenomes
Reposted by Fotis Psomopoulos
PUBMED is down. This is disaster !!
We do not have the system and organization to replace it. (EuroPMC is great but not a replacement)
It is crystal clear that we cannot depend on critical systems provided by a single provider.
European reaction has to include science and science infrastructures.
We do not have the system and organization to replace it. (EuroPMC is great but not a replacement)
It is crystal clear that we cannot depend on critical systems provided by a single provider.
European reaction has to include science and science infrastructures.
March 2, 2025 at 10:18 AM
PUBMED is down. This is disaster !!
We do not have the system and organization to replace it. (EuroPMC is great but not a replacement)
It is crystal clear that we cannot depend on critical systems provided by a single provider.
European reaction has to include science and science infrastructures.
We do not have the system and organization to replace it. (EuroPMC is great but not a replacement)
It is crystal clear that we cannot depend on critical systems provided by a single provider.
European reaction has to include science and science infrastructures.
Reposted by Fotis Psomopoulos
If you’re at #deRSE25 at the @kit.edu don’t miss out on our #EVERSE workshop there: a dedicated contentathon on develeoping and integrating research software quality resources! Don’t miss out: events.hifis.net/event/1741/c...
events.hifis.net
February 24, 2025 at 1:42 PM
If you’re at #deRSE25 at the @kit.edu don’t miss out on our #EVERSE workshop there: a dedicated contentathon on develeoping and integrating research software quality resources! Don’t miss out: events.hifis.net/event/1741/c...
Reposted by Fotis Psomopoulos
Less than a week to go until our #EVERSE Network launch event on 18th February, 2025, 10.00 CET. Join us for a lively exchange on the future of #researchsoftwarequality: see what we can offer and let us know what you would wish for RSQ. Make sure to register: indico.cern.ch/event/1501988/
Save the date: on 18th February we are having a launch event for our #EVERSE Network of Research Software Quality. Come and join us in the quest of shaping the future of #RSQ! All details about the Network and the event to be found here: indico.cern.ch/event/1501988/ . Don't forget to register!
EVERSE Network Launch
This is the launch event for the EVERSE Network of Research Software Quality - a community that will improve the quality of research software in Europe and beyond. We invite everyone who is interested...
indico.cern.ch
February 12, 2025 at 12:52 PM
Less than a week to go until our #EVERSE Network launch event on 18th February, 2025, 10.00 CET. Join us for a lively exchange on the future of #researchsoftwarequality: see what we can offer and let us know what you would wish for RSQ. Make sure to register: indico.cern.ch/event/1501988/
Very interesting presentation of the @scienceeurope.org survey on Open Science policies by @bsaenen.bsky.social. Really happy that research software was identified as a key element to be addressed, with clear recommendations - and very well aligned to @eosc-everse.bsky.social goals and objectives.
January 28, 2025 at 4:21 PM
Very interesting presentation of the @scienceeurope.org survey on Open Science policies by @bsaenen.bsky.social. Really happy that research software was identified as a key element to be addressed, with clear recommendations - and very well aligned to @eosc-everse.bsky.social goals and objectives.
Today we had the session on the EOSC Opportunity Area Expert Group 7 on Research Software in the context of the EOSC Winter School. A small, but very dedicated group of people, which led to some concrete actions moving forward! @eosc-everse.bsky.social #researchsoftware #SoftwareHeritage
January 22, 2025 at 12:00 PM
Today we had the session on the EOSC Opportunity Area Expert Group 7 on Research Software in the context of the EOSC Winter School. A small, but very dedicated group of people, which led to some concrete actions moving forward! @eosc-everse.bsky.social #researchsoftware #SoftwareHeritage
Happy to be a participant in the EOSC Association Winter School (eosc.eu/eosc-focus-p...) in Seville, representing both @eosc-everse.bsky.social as well as the newly established Opportunity Area Expert Group 7 on Research Software.
Looking forward to all the discussions over the next two days!
Looking forward to all the discussions over the next two days!
January 21, 2025 at 8:52 AM
Happy to be a participant in the EOSC Association Winter School (eosc.eu/eosc-focus-p...) in Seville, representing both @eosc-everse.bsky.social as well as the newly established Opportunity Area Expert Group 7 on Research Software.
Looking forward to all the discussions over the next two days!
Looking forward to all the discussions over the next two days!
Reposted by Fotis Psomopoulos
The second edition of our newsletter “Into the EVERSE” is out now. Read all about what happened and all that is about to come here:
everse.software/news/2025-01...
everse.software/news/2025-01...
Into the EVERSE (January 2025)
The second edition of our newsletter is here! Read it here.
everse.software
January 20, 2025 at 5:45 PM
The second edition of our newsletter “Into the EVERSE” is out now. Read all about what happened and all that is about to come here:
everse.software/news/2025-01...
everse.software/news/2025-01...
Reposted by Fotis Psomopoulos
Our new preprint "microGalaxy: A gateway to tools, workflows, and training for accessible, reproducible, and FAIR microbial data analysis" is live! 🎉
📝 Read it here: www.biorxiv.org/content/10.1...
#Microbiome #FAIRdata #usegalaxy @galaxyproject.bsky.social
📝 Read it here: www.biorxiv.org/content/10.1...
#Microbiome #FAIRdata #usegalaxy @galaxyproject.bsky.social
microGalaxy: A gateway to tools, workflows, and training for reproducible and FAIR analysis of microbial data
Microbial research generates vast and complex data from diverse omics technologies, necessitating innovative analytical solutions. microGalaxy (Galaxy for Microbiology) addresses these needs with a us...
www.biorxiv.org
January 8, 2025 at 12:16 PM
Our new preprint "microGalaxy: A gateway to tools, workflows, and training for accessible, reproducible, and FAIR microbial data analysis" is live! 🎉
📝 Read it here: www.biorxiv.org/content/10.1...
#Microbiome #FAIRdata #usegalaxy @galaxyproject.bsky.social
📝 Read it here: www.biorxiv.org/content/10.1...
#Microbiome #FAIRdata #usegalaxy @galaxyproject.bsky.social
Reposted by Fotis Psomopoulos
🎉 Exciting Announcement!
🚀 Applications are now open for the course:
Artificial Intelligence and Machine Learning in Life Sciences: From Foundations to Applications
📍 Aussois, France
📅 May 19–23, 2025
🔗 Apply here: moodle.france-bioinformatique.fr/course/view....
🚀 Applications are now open for the course:
Artificial Intelligence and Machine Learning in Life Sciences: From Foundations to Applications
📍 Aussois, France
📅 May 19–23, 2025
🔗 Apply here: moodle.france-bioinformatique.fr/course/view....
Cours : Artificial Intelligence and Machine Learning in Life Sciences: from foundations to applications (2025)
moodle.france-bioinformatique.fr
January 7, 2025 at 12:34 PM
🎉 Exciting Announcement!
🚀 Applications are now open for the course:
Artificial Intelligence and Machine Learning in Life Sciences: From Foundations to Applications
📍 Aussois, France
📅 May 19–23, 2025
🔗 Apply here: moodle.france-bioinformatique.fr/course/view....
🚀 Applications are now open for the course:
Artificial Intelligence and Machine Learning in Life Sciences: From Foundations to Applications
📍 Aussois, France
📅 May 19–23, 2025
🔗 Apply here: moodle.france-bioinformatique.fr/course/view....