It’s blossom time of year again in sunny Dundee Scotland UK!

Did you know Jalview can bring your alignments to life in 3D? Experience the beauty of molecular graphics with PyMol, UCSF Chimera, ChimeraX and JMol in the editor.

▶️ Watch our NEW training video for more insights: www.youtube.com/watch?v=pbms...

💡AlphaFold's pLDDT scores can be visualised in Jalview as annotation tracks at the bottom - useful when comparing regions of high confidence across predicted protein structures in alignments.
▶️ For a guided tour of AlphaFold metrics in Jalview, watch: www.youtube.com/watch?v=WVCM...

With thanks to @wellcometrust.bsky.social @pdbeurope.bsky.social @ebi.embl.org @bartongrp.bsky.social @gjbarton.bsky.social @foreveremain.bsky.social and @stuartmac44.bsky.social

Using 3D Beacons to access AlphaFold, Protein Data Bank and more in Jalview YouTube video by Jalview & Dundee Resource Online Training

➡️ Watch our training video to find out more about structure discovery in Jalview: www.youtube.com/watch?v=ZBDZ...

🔎 Browse extensive libraries of protein structures in Jalview using the 3D Beacons Network. Once imported, these can be colored, superimposed and viewed in 3D in conjunction with alignments.

👓 Synced views provide precision and clarity, allowing you to hone in on regions of importance.

I’ll bear that in mind, but as someone who has perfected falling asleep in seminars ( even the interesting ones!) it will have to be an amazing story! 🤣

Hahaha! I use “Sliced Bread” on BBC sounds and other shows…. As a change from books… I’ll branch out and try your suggestions. 👍

99/100 times I wake up more than an hour later, go back to the bookmark and realise I fell asleep within a few minutes. I repeat this through the night. Music doesn’t work for me but maybe that or white noise can help others? 2/2

I had the same experience when I got my Garmin. I relaxed more about sleep patterns. Getting back to sleep was always a problem though. My solution is to listen to an audiobook. I bookmark then set a timer for 60 minutes. 1/2

I was very sad to hear this morning that Phil Bourne had passed away on 8th March. I've known Phil for many years but we had a great collaboration in the early days of the RCSB-PDB when he led the San Diego part of the consortium and I was in charge of the European project at EMBL-EBI. RIP Phil.

My favourite index at the moment is the Field Weighted Citation Index which does a better job than h-index, particularly for early career folk, since h is so biased by field and age. Neither h nor FWCI do what your metric does of course!

yes, probably preprints and also other outputs that have a DOI? I'm not sure what openalex.org include but we do have a lot of software releases with doi from zenodo and will have mostly the same set of authors. Great idea!

Nice idea!

I tried it for me "Geoffrey Barton" and Got 77 but I think it is perhaps double counting some outputs?

New awards? Crikey! The USA is abandoning science. Very sad to see.

Crocuses on Dundee university campus

The annual crocuses on campus at #dundee university #scotland photo!

🌍 Twelve months of hard work - endless possibilities for world science. Watch our video tribute to the Jalview community for making 2025 such an incredible year for all of us!
(Sound on 🗣️)

Thank you all ❤️

🎉 Happy #new #year to everyone!

📢 No better way to kickstart 2026 than by sharing our latest work, now available on #Open #Biology by @royalsociety.org. The title is "Mutations within the predicted fragment-binding region of FAM83G/SACK1G abolish ints interaction with the Ser/Thr kinase CK1α".

Jalview team members Geoff, Jim, Khadija, Renia and Ben posing for a festive photo in the School of Life Sciences, University of Dundee!

❄️Thank you so much to all our users and followers worldwide for making 2025 such a memorable year for us! Seasons greetings to all from the Jalview team all the way from wintry Scotland.❄️

We hope to see you in the new year! ❤️

Erasmus live updates: Scheme to return for UK students from 2027 British students will be able to spend a year studying at EU universities without paying extra fees, and vice versa for European students.

I have to say how happy I am that at least one of the disasters due to Brexit has been undone!
Erasmus was always an amazing way to bring talented students to my lab to gain experience, great to see it will be possible again in the future! www.bbc.co.uk/news/live/c4...

💡Beacon of hope!

Did you know Jalview allows you to access thousands of experimental and predicted protein structures programmatically through the 3D Beacons network?

🔽Find out how on our YouTube channel: www.youtube.com/watch?v=ZBDZ...

One of those November sunsets at Dundee Scotland today 😀

Yes, core funded research institutes do this (EMBL, CRUK, MRC-LMB, MaxPlanck etc) but it is rare for universities to.

Which ones? I want a job there!! Not in the UK not even Oxbridge. The closest to this is a few core funded research institutes but even there everyone is subject to a 5-year review and outcome is linked to funding. Maybe Switzerland?

Forecast suggests it will be windy through the night. Much worse over on the West Coast of course! Stay safe!

You may be right. I guess someone here might find official statistics on shootings in the uk and gun deaths. This might guide what ‘mass’ means. As a layman I tend to think of large tragedies as mass. Clearly the USA ‘wins’ but maybe the numbers in the post were for all shootings?

You mean the USA I assume? In the UK there are perhaps 1 or 2 incidents with 4 or more people shot/year. There have thankfully only been a couple of terrible mass shootings in my lifetime. Hungerford (1980s) and Dunblane(1990s) Dunblane led to a total ban on hand gun ownership in the UK.

UK numbers look way off. Far too big.

I never used them but my PhD desk room in the basement at Birkbeck London had boxes of them on the high shelves. They mostly hand reflection data from X-ray crystallography experiments I think 🤔

The new secondary structure annotation tree showcasing all protein secondary structure providers available for sequences in a sample ferredoxin alignment in Jalview 2.11.5.

🚀 Jalview 2.11.5 is here!

New features include:
✅ Tree visualisation for enhanced protein secondary structure analysis
✅ Consensus colouring for alignments and subgroups
✅ Improved command line options for 3D structure visualisation

Plus, key bug fixes and performance improvements.