Green Open Access: where is the index?

Gold Open Access is literature that has an explicit open license, like CC-BY. It optionally has an article processing charge (APC). It optionally charges APC to make profit or to fund other activities, like some societies do. Green Open Access is literature that has been made available by repositories. It optionally has an open license. It optionally has a standardized license, like CC-BY. But it can also be that no clear license is given or the “license” refers to some (local) law. 3 minute read

WikiPathways: biological pathways across the species

I was not there. I only joined the WikiPathways project in late 2011, just as a contributor. And it was just before joining the BiGCaT research team of Prof. Chris Evelo in January 2012, where I started a project in the Open PHACTS project, not really about WikiPathways, but the open science WikiPathways was the main reason for me to join the group. Open PHACTS was close to my research and just created that opportunity. 5 minute read

Crossref, how do I get old blog post URLs linked to the new DOIs?

Now that Rogue Scholar is getting serious about citations to blog posts and how complex this is, I have been wondering how this works. less than 1 minute read

Rogue Scholar keeps challenging the functionality of my blog

Rogue Scholar continues to offer awesome features. It seems the recent move to InvenioRDM (14.0 was just released) was a good one. It does require rewrites, but make things more scalable. One thing that did exist in the InvenioRDM-based Rogue Scholar last year was citations to blog posts. But even that was redeveloped and relaunched a few days ago. It does not have yet the same amount of citations to blog posts as before, but more than 1200 can be found again. 2 minute read

Scientias, oudheidkunde, en wetenschap, hoe dan

Communication of science is important to me and it comes in many formats. Educational resources, research articles, text books, popular science magazines, blogs, TV shows, podcasts, etc (in no particular order). Somewhere during the pandemic, I started listening to podcasts. I had done that, in the early days, but those early podcasts… well, let’s say, the format had not materialized yet. But also that it can be quite helpful to not play the podcast at the normal speeds, but at, say 1.25x. Podcasts, like any of the above format have a style, an audience in mind. Maybe the audience is first year students, peer in the research field, or the general audience. Or a politician that wants to get credibility. There are several podcasts that I have been listening. Not as education. The may have episode notes, but not proper scientific references. References is one thing important in the communication. Context is another. 11 minute read

Molecular Inorganics: SMILES, MDL molfile v3000, and InChIs

Making chemistry more FAIR requires unique identifiers for chemical structures. For organic compounds plenty of solutions exist that do a great job. Last year and last week, I attended two technical InChI meetings, both with organometallic compounds and other molecular inorganics as one of the key topics. Thanks to Sonja (Mastodon bridge) and Gerd for the invitations. My role includes thinking about what all the work on the InChI means for the Chemistry Development Kit. 3 minute read

Carbon beats gold: Diamond Open Access is the future #2

We need a lot more than diamond open access to really improve the publishing models. That said, but there are examples that diamond open access publishers actually want to improve more just the access to the knowledge dissemination infrastructure. But infrastructure is not only technologies; it also includes the many social aspects that are involved in adoption. And we saw enough of that in the open access transition. 5 minute read