RE: https://mastodon.social/@macromare/115971690656813991

The gap in sustainable, independent infrastructure is real. While #EuropePMC positions itself as an "open scholarly infrastructure" provider, it remains operationally dependent on U.S. systems for a significant portion of its journal content pipeline. If #PubMed were restricted or discontinued, European researchers would face a lag in accessing new journal literature and would be forced to rely on either archived snapshots of content or more fragmented preprint sources.

#OpenScience #OpenSource

RE: https://mastodon.social/@macromare/115971690656813991

The gap in sustainable, independent infrastructure is real. While #EuropePMC positions itself as an "open scholarly infrastructure" provider, it remains operationally dependent on U.S. systems for a significant portion of its journal content pipeline. If #PubMed were restricted or discontinued, European researchers would face a lag in accessing new journal literature and would be forced to rely on either archived snapshots of content or more fragmented preprint sources.

#OpenScience #OpenSource

My first #vibecoding applications. In my research life I struggle with keeping up with the literature and organizing my lab notebook.

I made a customizable automated literature search tool that performs weekly searches of #pubmed and #biorxiv then uses Claude to summarize and give a priority ranking based on my current #research

Also built an experiment management system to keep me on track and my data organized

Thanks for the inspiration @kevin and @Casey

https://hazletonlab.com/software.html

A new study by 🇨🇭 researcher analysed nearly 18,000 #PubMed papers and found 413 cases where Ukrainian cities were incorrectly listed as Russian, mostly #Simferopol and #Sevastopol:

https://doi.org/10.1177/01655515251388044

The work shows a clear post-2014 rise in such misattributions and highlights how #war shape academic metadata. A concise and rigorous contribution to understanding the visibility of Ukrainian research.

#Science #Diplomacy #Ukraine #Research #ScholarlyCommunication

A new study by 🇨🇭 researcher analysed nearly 18,000 #PubMed papers and found 413 cases where Ukrainian cities were incorrectly listed as Russian, mostly #Simferopol and #Sevastopol:

https://doi.org/10.1177/01655515251388044

The work shows a clear post-2014 rise in such misattributions and highlights how #war shape academic metadata. A concise and rigorous contribution to understanding the visibility of Ukrainian research.

#Science #Diplomacy #Ukraine #Research #ScholarlyCommunication

"Germany’s Plan for an Open and Independent PubMed Safety Net."
https://absolutelymaybe.plos.org/2025/05/14/germanys-plan-for-an-open-and-independent-pubmed-safety-net/

" #Germany has stepped up to this challenge. On May 2, the German National Library of Medicine ( #ZBMED), announced they were planning to develop an “open, reliable, and sustainable” alternative to #PubMed."

#Censorship#DefendResearch#OpenInfrastructure#Preservation#Takedowns #Trump #TrumpVResearch#USPol#USPolitics

My question for #researchers in the fields of #biology , #genetics , #medecine , etc... is are we going to be ready for the possibility of #PubMed and other #NIH online databases and services becoming one of the many casualties of the current #US administration and its increasingly unreliable #HHS department?

This is an interesting opportunity for the broader international research community to create a more distributed, resilient alternative. Scientists, citizen or otherwise... any ideas? #phd

"The big vision is to move past the reliance on any single country’s investment in this core life sciences infrastructure: It’s not to have a duplicative, parallel structure in Germany, nor to simply transplant a centralized system from the US to Germany. The goal is a fully open source, federated, safety net, embedded within the international community, with a strong global network of support."

@hildabast, 2025

https://absolutelymaybe.plos.org/2025/05/14/germanys-plan-for-an-open-and-independent-pubmed-safety-net/

The project account; @ZBMED.

#OpenScience#PubMed#ZBMED

"The big vision is to move past the reliance on any single country’s investment in this core life sciences infrastructure: It’s not to have a duplicative, parallel structure in Germany, nor to simply transplant a centralized system from the US to Germany. The goal is a fully open source, federated, safety net, embedded within the international community, with a strong global network of support."

@hildabast, 2025

https://absolutelymaybe.plos.org/2025/05/14/germanys-plan-for-an-open-and-independent-pubmed-safety-net/

The project account; @ZBMED.

#OpenScience#PubMed#ZBMED

Update pour les Mastonautes qui veulent les dernières mises à jour sur les risques encourus par PubMed :
- J'ai publié une nouvelle version de la note aujourd'hui : https://zenodo.org/records/15481800
- Si vous voulez déprimer pendant 1h15, je suis intervenu sur le sujet à MediaM la semaine dernière, et c'est sur canal-u : https://www.canal-u.tv/chaines/callisto/point-d-actualite-pubmed-sous-l-administration-trump-12052025

La grosse bonne nouvelle (qui est sortie après la vidéo), c'est le projet de la ZB MED de développer un PubMed européen ! C'est le projet OLSPub, détaillé ici (page en allemand et en anglais) : https://www.zbmed.de/forschen/laufende-projekte/olspub. La page est régulièrement mise à jour, et la ZB MED a lancé un appel à soutiens.

#pubmed #medline #medlibs

"Germany’s Plan for an Open and Independent PubMed Safety Net."
https://absolutelymaybe.plos.org/2025/05/14/germanys-plan-for-an-open-and-independent-pubmed-safety-net/

" #Germany has stepped up to this challenge. On May 2, the German National Library of Medicine ( #ZBMED), announced they were planning to develop an “open, reliable, and sustainable” alternative to #PubMed."

#Censorship#DefendResearch#OpenInfrastructure#Preservation#Takedowns #Trump #TrumpVResearch#USPol#USPolitics

Update. "Because of #Trump: [The German] Central Library of #Medicine builds alternative to US database."
https://www.heise.de/news/Wegen-Trump-Zentralbibliothek-Medizin-baut-Alternative-zu-US-Datenbank-auf-10372291.html

From Google's English: "The German National Library of Medicine ( #ZBMed) has announced its intention to create an "open, reliable, and sustainable alternative" to the #PubMed database, one of the most important and comprehensive resources for biomedical literature worldwide. The meta-database, with references to relevant articles and over 38 million citations, is operated by the National Library of Medicine ( #NLM), a division of the National Institutes of Health ( #NIH) in the United States. ZB Med is responding to concerns that the US administration under Donald Trump is cutting funding for the NIH. There are also fears that political influences could compromise PubMed's scientific integrity."

#Censorship #DefendResearch #Germany #Preservation #Takedowns #Trump #USPol #USPolitics

How it started and how it's going...
PubMed in 2013 and PubMed in 2025

Yes, 12 years of complete inaction on #PubMed and all the other thousands of research databases hosted by single points of failure. What does it take for #science to wake up from hibernation and leave its digital cave?

https://www.nature.com/articles/d41586-025-00674-3

#medicine #academicchatter

Update. Therese Choquette ran searches on #PubMed and may have found gaps corresponding to terms banned by the #Trump admin.
https://www.linkedin.com/posts/therese-choquette-former-vallerskog-1531132_pubmed-activity-7301996327691816961-afAN?rcm=ACoAAADEjlkBbyOxuygZagmqeEC6540rx1UQQSs

PS: Unfortunately she compared US PubMed with Europe PubMed Central, which is apples to oranges. (PubMed is metadata-only and PMC is full text.) Can we crowdsource some systematic searches comparing (1) PubMed now with PubMed before Trump, e.g. in the Wayback Machine, and (2) US PMC with Europe PMC?

#DefendResearch #Trump#USPol#USPolitics

So I didn't know, but Europe already has a backup of PubMed, the database of biomedical research publications. The US PubMed broke down over the weekend. And here is our alternative: https://europepmc.org/ #pubmed #pmc

Friends and colleagues: if you have published work that has previously been made available via #PubMed or other federally-controlled architecture, I strongly encourage you to find other ways to share it. For instance: KC Works is a non-profit, community-governed repository (built on top of CERN's InvenioRDM). We support all fields, all languages, all geographical locations. Join us and ensure that your work can remain available to all. https://works.hcommons.org