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Omega_Scribet'Storing PubMed leidt tot onrust'"vrees dat de site was verwijderd door de Trump-regering""Dat bleek niet het geval. Niettemin zegt de Nederlandse software-expert Bert Hubert in Nature dat er ‘een heel serieus onderzoek’ zou moeten komen naar hoe dit heeft kunnen gebeuren en waarom het twee dagen heeft geduurd om het probleem te verhelpen, ‘want dit is wereldwijd kritieke infrastructuur’.""PubMed-storingen zouden bovendien best vaker kunnen voorkomen als NCBI-medewerkers met de juiste expertise om de service te onderhouden hun baan verliezen als onderdeel van de wijdverbreide robuuste reductie in het aantal ambtenaren bij federale overheidsinstanties. Er is een back-up, die heet Europe PMC en is onderdeel van het European Molecular Biology Laboratory's European Bioinformatics Institute, gevestigd in Hinxton, VK. Dat beschikt over een kopie van de gehele PubMed-database."<a href="https://www.medischcontact.nl/actueel/laatste-nieuws/nieuwsartikel/storing-pubmed-leidt-tot-onrust" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.medischcontact.nl/actueel/laatste-nieuws/nieuwsartikel/storing-pubmed-leidt-tot-onrust</a><a href="https://mementomori.social/tags/gezondheid" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#gezondheid</a> <a href="https://mementomori.social/tags/zorg" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#zorg</a> <a href="https://mementomori.social/tags/onderzoek" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#onderzoek</a> <a href="https://mementomori.social/tags/science" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#science</a> <a href="https://mementomori.social/tags/PubMed" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#PubMed</a> <a href="https://mementomori.social/tags/NCBI" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#NCBI</a> <a href="https://mementomori.social/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a><a href="https://fosstodon.org/@bert_hubert" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@bert_hubert</a>

devSJR :python: :rstats:<a href="https://fediscience.org/@fresseng" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@fresseng</a> You should get in touch with <a href="https://hcommons.social/@kfitz" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@kfitz</a> They even have their own :mastodon: instance and are interacting with <a href="https://fosstodon.org/tags/bonfire" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bonfire</a> folks.OK, my list is now<a href="https://fosstodon.org/tags/Zenodo" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Zenodo</a> (in use, but I didn't see its potential 🏆) <a href="https://fosstodon.org/tags/OpenAlex" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#OpenAlex</a> (in me use 🦸) <a href="https://fosstodon.org/tags/kcworks" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#kcworks</a> (ready to discover this week 🕵️) <a href="https://fosstodon.org/tags/Bonfire" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bonfire</a> (waiting for it 👀) <a href="https://fosstodon.org/tags/europepmc" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#europepmc</a> (will use it more 🦾) <a href="https://fosstodon.org/tags/ORCiD" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#ORCiD</a> (my appologies, I undervalued you🧎)

eddyNow, if <a href="https://mstdn.social/tags/Pubmed" class="mention hashtag" rel="tag">#Pubmed</a> is taken offline entirely, that would suck, we would probably all head over to <a href="https://mstdn.social/tags/EuropePMC" class="mention hashtag" rel="tag">#EuropePMC</a> (we should) and EuropePMC would have to make a few adaptations, mirroring is not going to be enough anymore, they'll have to take the lead.

Wolfgang Hagen<a href="https://troet.cafe/@Josteglitz" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@Josteglitz</a> <a href="https://fedihum.org/@SafeguardingResearch" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@SafeguardingResearch</a> <a href="https://fedihum.org/@lavaeolus" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@lavaeolus</a> <a href="https://mas.to/@kakape" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@kakape</a> I do. 🙂 But I have never thought much about it.I understand that lots of the <a href="https://wien.rocks/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> content is from <a href="https://wien.rocks/tags/PubMed" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#PubMed</a>. Will they have the capacity to do it completely on their own, if <a href="https://wien.rocks/tags/PubMed" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#PubMed</a> is shut down?

Fco Javier Casas CiriaGiven the risk that Pubmed's indexing of topics that the political agenda wants to hide may be compromised, remember the existence of <a href="http://europepmc.org" rel="nofollow noopener noreferrer" translate="no" target="_blank">http://europepmc.org</a><a href="https://fedihum.org/@lavaeolus" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@lavaeolus</a> <a href="https://fedihum.org/@lavaeolus/113927084498428634" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://fedihum.org/@lavaeolus/113927084498428634</a><a href="https://mstdn.science/tags/Pubmed" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Pubmed</a> <a href="https://mstdn.science/tags/europepmc" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#europepmc</a>

Marc Robinson-RechaviDoes anyone know of a search engine which searches all <a href="https://ecoevo.social/tags/preprint" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#preprint</a> archives, and only preprint archives (i.e., not Google Scholar)? In <a href="https://ecoevo.social/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> I find <a href="https://biologists.social/@biorxivpreprint" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@biorxivpreprint</a> and @ecoevorxiv, but not <a href="https://qoto.org/@arxiv_bio" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@arxiv_bio</a>.

Ludo WaltmanWe urge stakeholders in the research system to work with innovation-friendly bibliographic databases. Examples of databases that are more supportive of innovation include <a href="https://social.cwts.nl/tags/Dimensions" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Dimensions</a>, <a href="https://mastodon.social/@OpenAlex" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@OpenAlex</a> and <a href="https://social.cwts.nl/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a>, among others.

Ludo WaltmanHow we built a database of preprints <a href="https://blog.europepmc.org/2024/11/how-we-built-a-database-of-preprints.html" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://blog.europepmc.org/2024/11/how-we-built-a-database-of-preprints.html</a>While <a href="https://social.cwts.nl/tags/WebOfScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#WebOfScience</a> is 'delisting' innovative platforms such as <a href="https://fediscience.org/@eLife" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@eLife</a>, <a href="https://social.cwts.nl/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> is moving in the opposite direction and is working hard to give maximal visibility to preprints and preprint reviews. Exemplary work!

Nick Byrd, Ph.D.Thanks, <a href="https://fnordon.de/@bleistifterin" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@bleistifterin</a>. A quick skim didn't make me think this is ready to go for the average person.Somewhere else in the replies to my post was a suggestion to just use <a href="https://nerdculture.de/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> which can send alerts for ORCIDs (and other identifiers).

Nick Byrd, Ph.D.Wow, I love this feature. Thanks for sharing, <a href="https://social.esmarconf.org/@kdnyhan" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@kdnyhan</a> I can even tell <a href="https://nerdculture.de/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> which day to send the alert (to protect <a href="https://nerdculture.de/tags/workLifeBalance" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#workLifeBalance</a> by getting work emails on the weekend — looking at you <a href="https://nerdculture.de/tags/googlescholar" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#googlescholar</a>).And there's an option to have the abstract included in the email alert, saving me unnecessary trips to the online paper to see if the methods are appropriate for the kinds of questions that interest me!So cool! 👏

Infodoc MicroVeilleEnabling preprint discovery, evaluation, and analysis with Europe PMC<a href="https://microblogging.infodocs.eu/2024/05/17/enabling-preprint-discovery-evaluation-and-analysis-with-europe-pmc/" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://microblogging.infodocs.eu/2024/05/17/enabling-preprint-discovery-evaluation-and-analysis-with-europe-pmc/</a><a href="https://social.sciences.re/tags/BiomedicalResearch" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#BiomedicalResearch</a> <a href="https://social.sciences.re/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> <a href="https://social.sciences.re/tags/JohannaMcEntyre" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#JohannaMcEntyre</a> <a href="https://social.sciences.re/tags/MariiaLevchenko" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#MariiaLevchenko</a> <a href="https://social.sciences.re/tags/MelissaHarrison" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#MelissaHarrison</a> <a href="https://social.sciences.re/tags/MichaelParkin" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#MichaelParkin</a> <a href="https://social.sciences.re/tags/OpenAccess" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#OpenAccess</a> <a href="https://social.sciences.re/tags/Preprint" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Preprint</a> <a href="https://social.sciences.re/tags/ScientificCommunication" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#ScientificCommunication</a>

Ludo WaltmanImpressive to see all the efforts <a href="https://social.cwts.nl/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> is making to offer high-quality indexing of preprints. This is so important! <a href="https://doi.org/10.1101/2024.04.19.590240" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://doi.org/10.1101/2024.04.19.590240</a>Still a lot of work to do to further strengthen the preprint infrastructure ecosystem, e.g. to improve metadata availability: "there is a lot of variability in scope of metadata deposited by preprint servers to <a href="https://mastodon.online/@crossref" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@crossref</a>"See also my 2023 blog post with <a href="https://social.cwts.nl/@neesjanvaneck" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@neesjanvaneck</a> about preprint indexing in different databases <a href="https://doi.org/10.54900/fk7p22x-xydnebd" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://doi.org/10.54900/fk7p22x-xydnebd</a>.<a href="https://mas.to/@ASAPbio" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@ASAPbio</a>

Ludo WaltmanLast year <a href="https://social.cwts.nl/@neesjanvaneck" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@neesjanvaneck</a> and I made recommendations for improving the indexing of preprints in bibliographic databases <a href="https://upstream.force11.org/the-preprint-revolution-implications-for-bibliographic-databases/" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://upstream.force11.org/the-preprint-revolution-implications-for-bibliographic-databases/</a>.Great to see that <a href="https://social.cwts.nl/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> is making important progress in realizing one of the recommendations ("Recommendation 4: Provide links between preprints and peer reviews") <a href="https://blog.europepmc.org/2024/01/discovering-reviewed-preprints.html" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://blog.europepmc.org/2024/01/discovering-reviewed-preprints.html</a>!<a href="https://mas.to/@ASAPbio" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@ASAPbio</a>

Ludo WaltmanThis morning I gave a brief talk about preprint peer review at the <a href="https://social.cwts.nl/tags/PreprintReview23" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#PreprintReview23</a> workshop organized by <a href="https://social.cwts.nl/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> and <a href="https://mas.to/@ASAPbio" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@ASAPbio</a>.I made the observation that everyone seems unhappy and frustrated in the traditional peer review system. Change in peer review is long overdue!<a href="https://social.cwts.nl/@cwts" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@cwts</a>

petersuberUpdate. <a href="https://fediscience.org/tags/SCOPUS" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#SCOPUS</a> and <a href="https://fediscience.org/tags/WOS" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#WOS</a> are also very incomplete at indexing <a href="https://fediscience.org/tags/preprints" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#preprints</a>. See this new study comparing them to <a href="https://fediscience.org/tags/Dimensions" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Dimensions</a>, <a href="https://fediscience.org/tags/Lens" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Lens</a>, and <a href="https://fediscience.org/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a>. <a href="https://upstream.force11.org/the-preprint-revolution-implications-for-bibliographic-databases/" rel="nofollow noopener noreferrer" target="_blank">https://upstream.force11.org/the-preprint-revolution-implications-for-bibliographic-databases/</a>

Kate Nyhan<a href="https://a.gup.pe/u/medlibs" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@medlibs</a> 3. EuropePMC handles hyphenated search terms differently from how I expected. I expected line 9 would process like lines 8 or 7, but actually line 9 is the same and lines 10 or 11. Lesson: put your hyphenated search terms into quotes when you search <a href="https://social.esmarconf.org/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a> <a href="https://social.esmarconf.org/tags/medlibs" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#medlibs</a>

Ludo WaltmanThe preprint revolution - Implications for bibliographic databases <a href="https://upstream.force11.org/the-preprint-revolution-implications-for-bibliographic-databases/" rel="nofollow noopener noreferrer" target="_blank">https://upstream.force11.org/the-preprint-revolution-implications-for-bibliographic-databases/</a>Bibliographic databases are increasingly recognizing importance of preprints. How do they index preprints?<a href="https://social.cwts.nl/@neesjanvaneck" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@neesjanvaneck</a> and I offer 6 recommendations for preprint indexing. We show to what extent <a href="https://social.cwts.nl/tags/Dimensions" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Dimensions</a>, <a href="https://social.cwts.nl/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a>, <a href="https://social.cwts.nl/tags/Lens" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Lens</a>, <a href="https://social.cwts.nl/tags/Scopus" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Scopus</a> and <a href="https://social.cwts.nl/tags/WebOfScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#WebOfScience</a> meet these recommendations.Improving preprint indexing requires joint action by many players in scholarly publishing infrastructure ecosystem!<a href="https://social.cwts.nl/@cwts" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@cwts</a>

Ludo Waltman<a href="https://mastodon.dias.ie/@Luke_Drury" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@Luke_Drury</a> <a href="https://social.cwts.nl/@cwts" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@cwts</a> <a href="https://social.cwts.nl/@neesjanvaneck" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@neesjanvaneck</a> Thanks Luke, I must admit I'm not familiar with the ADS system, but this sounds great.There are also various multidisciplinary databases that have been indexing preprints already for some time, including <a href="https://social.cwts.nl/tags/Dimensions" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Dimensions</a>, <a href="https://social.cwts.nl/tags/Lens" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Lens</a> and <a href="https://social.cwts.nl/tags/EuropePMC" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EuropePMC</a>. We'll discuss this in the blog post that we're working on.

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