iiinova — where your digital self keeps evolving

Jochem Smit @jhsmit.bsky.social · 16/07/2025

Just updated my hikemap with our Ardennes hikes!🗺️🥾 One of the perks of living in Belgium: epic trails basically in your backyard 🇧🇪🌳 There are a couple of cool two-day hikes here as well which were (rather painful😅) training sessions for our Norway adventure 🇳🇴🏔️ jhsmit.org/hikes/hikema... #hiking

Map of hiking routes in the Belgian Ardennes, with markers and trails highlighting hikes.

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Jochem Smit @jhsmit.bsky.social · 20/05/2025

Such a pleasure to define HDX-MS states directly in VS code! #solara #hdxms-datasets

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Jochem Smit @jhsmit.bsky.social · 29/04/2025

Having some fun with 3DPGA & kingdon (GA library for python) in ipymolstar! Geometric Algebra feels like magic 🪄; I don't understand it but surely its very powerful 💪 Live example on pycafe: py.cafe/jhsmit/ipymo...

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Jochem Smit @jhsmit.bsky.social · 10/04/2025

New release for #ipymolstar: I've added a widget for the amazing and very powerful MolViewSpec. This allows you to control the camera📷from python🐍, as well as all other molviewspec features 🎉 ipymolstar repo: github.com/jhsmit/ipymo... Molviewspec: molstar.org/mol-view-spec/

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Jörg Enderlein @joergenderlein.bsky.social · 23/03/2025

I was invited, for July, to a scienctific meeting in Telluride (Colorado). I was told it is a wonderful place for a conference, and I was very much looking forward to an exciting meeting in a fantastic environment. I have just canceled my participation, despite having booked already everything.

theguardian.com

French scientist denied US entry after phone messages critical of Trump found

France’s research minister said the scientist was traveling to Houston for a conference when his phone was searched

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Eve Seuntjens @eveseuntjens.bsky.social · 19/02/2025

Hi folks, I would like to know which EU universities are willing or planning to organise #standupforscience activities in solidarity with US scientists Please contact me if you are. Thanks for reposting!

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Vatnik Soup @vatniksoup.bsky.social · 18/02/2025

In today’s Vatnik Soup, I’ll introduce how the Elon Musk’s Election Interference Machine™ (EIM) works. Since Musk and his broligarch allies won the presidency for Trump, they’ve now harnessed the machine to interfere in European elections, including the ones in Germany and Romania. 1/23

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Jochem Smit @jhsmit.bsky.social · 06/01/2025

I have some exciting news to share!! A cute little boy arrived in our lives early december Mom & dad are very tired but happy 😃 birth card illustration by Tintenbaum tintenbaum.com

illustration of a baby boy riding a rhino into the sunset

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Jochem Smit @jhsmit.bsky.social · 06/12/2024

Here's a neat way to share you protein-annotated data 🚀🧪 Upload your .csv with residue/value data, select data column, colormap and norm to interactively color your protein model. Then, add title/description and click the button to open a shareable view with url-encoded data and settings.

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Jochem Smit @jhsmit.bsky.social · 29/11/2024

#ipymolstar v0.0.9: Added click interactions try it on pycafé: py.cafe/jhsmit/ipymo...

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Jochem Smit @jhsmit.bsky.social · 07/11/2024

Two-way tertiary/primary structure hover and highlight with #ipymolstar and #altair Try it on pycafe: py.cafe/jhsmit/ipymo...

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Thiago Carvalho @cyrilpedia.bsky.social · 29/10/2024

"In the Netherlands — where the Party for Freedom (PVV), led by the anti-Islam firebrand Geert Wilders, entered a coalition government in July — researchers are bracing for €1 billion (US$1.1 billion) in cuts to the budget, the worst in decades."

nature.com

Far-right governments seek to cut billions of euros from research in Europe

Anti-immigration parties are pushing policies that are hostile or indifferent towards science.

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Jochem Smit @jhsmit.bsky.social · 13/06/2024

By popular demand: How much monomer/dimer/tetramer are formed at steady-state given the two kds and the total concentration of protomer? 🧐 py.cafe/jhsmit/tetra...

py.cafe

PyCafe - Solara - Tetramerization Kinetics Analysis

PyCafe: get your daily fix of Python!

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Jochem Smit @jhsmit.bsky.social · 13/05/2024

I've created this #solara app where you can drag & drop your #alphafold3 .zip file and switch between chain color or plddt colors. Includes 'spin' and theme toggle for maximal viewing pleasure. The screenshot below shows the elusive SecA2/SecB4 complex. huggingface.co/spaces/Jhsmi...

A screenshot of the solarafold result viewer showing SecA2:SecB4 complex with plddt residue colors

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Jochem Smit @jhsmit.bsky.social · 25/04/2024

New in #ipymolstar version 0.0.4: directly load your local data files `pip install "ipymolstar==0.0.4"` github.com/Jhsmit/ipymo...

A screenshot of jupyter lab showing a code cell where a local .bcif file is loaded and passed to `PBDeMolstar`. The output is a 3D render of nCov spike protein.

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Reposted by Jochem Smit

Arjen Dijkstra @afbdijkstra.bsky.social · 11/04/2024

Dit is en blijft racisme. Iemand uit Afrika mag geen mening hebben over het Fries en komt gewoon geld graaien. Ik vind het ontluisterend dat dit op tv is en blijft.

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Jochem Smit @jhsmit.bsky.social · 18/03/2024

I've created my first widget with #anywidget! Its called `ipymolstar` and allows visualization of proteins or molecules interactively from python. check out the video below or try it live on ploomber: youtu.be/Syra-DCtQkA

youtu.be

ipymolstar

demo of ipymolstar in a solara app ipymolstar source: https://github.com/Jhsmit/ipymolstar example app source and live demo: https://github.com/Jhsmit/ploomber-solara-ipymolstar

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Anthony Vecchiarelli @cellforganized.bsky.social · 14/02/2024

Interested in the mechanisms driving subcellular organization in bacteria? The Vecchiarelli lab has a postdoc position available! docs.google.com/document/d/1... Plz RT!

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