Jalview

With thanks to @wellcometrust.bsky.social @gjbarton.bsky.social @bartongrp.bsky.social
@foreveremain.bsky.social @khadijasvoice.bsky.social
@stuartmac44.bsky.social bsky.social
@javierutges.bsky.social and the wider Barton research group.

🚀 Our latest AlphaFold video is out! Find out how you can discover hidden domains in your AlphaFold models using Jalview's PAE-focused cluster analysis.

▶️ Watch the full video here: www.youtube.com/watch?v=pQC8...

With thanks to @wellcometrust.bsky.social @gjbarton.bsky.social, @bartongrp.bsky.social, @foreveremain.bsky.social, @khadijasvoice.bsky.social, @stuartmac44.bsky.social, @javierutges.bsky.social and the rest of the Barton research group.

A protein sequence alignment in Jalview with reference annotation tracks consisting of the pLDDT score, secondary structure and PAE dowloaded for each sequence where data is available from AlphaFoldDB.

📣 Working with AlphaFold's PAE? The latest instalment in our 'Protein Model Quality' series may be of help! Find out how you can visualise the metric with your alignments and 3D structures in Jalview.

▶️ Watch the new training video here: www.youtube.com/watch?v=jowU...

Multiple sequence alignment in Jalview synced with outputs featured in tree, PCA and 3D molecular graphics viewers.

🖼️ Did you know you can export high-quality images from Jalview?

Find out how coloured alignments, phylogenetic trees and PCA plots can be turned into vibrant publication-worthy figures - all with the click of a few buttons.

▶️ Watch our training video on the topic: www.youtube.com/watch?v=wSov...

@nanoporetech.com @minipcr.bsky.social @wellcometrust.bsky.social @gjbarton.bsky.social @bartongrp.bsky.social @khadijasvoice.bsky.social @malcolmacaulay.bsky.social @foreveremain.bsky.social @stuartmac44.bsky.social @javierutges.bsky.social

Jalview, Daffodil DNA and James Hutton Institute exhibition booths at the ASE 2025 Conference in Cupar, Scotland.

🌼 Jalview and The Daffodil DNA Project were at the 2025 Conference @associationscied.bsky.social this weekend with colleagues from James Hutton.

🧬Lots of chats with folks about all things bioinformatics, DNA sequencing, multiple sequence alignment and protein structure!

Alignment algorithms available from within Jalview.

💡Alignment aficionados! Ever wondered how to easily use your favourite alignment methods? ClustalO, TCoffee, MAFFT, MUSCLE and more can be accessed from Jalview to align protein, DNA and RNA sequences.

⏩ Refresh your insights with our instructional video: www.youtube.com/watch?v=Majc...

YouTube video by Jalview & Dundee Resource Online Training Using 3D Beacons to access AlphaFoldDB, PDB and more in Jalview

🚀 Structure alert: Discover protein models in Jalview using the 3D Beacons network. Browse thousands of experimental and predicted structures from Protein Data Bank, AlphaFold, SWISS Model and more with the click of a few buttons!

▶️ Watch our instructional video: www.youtube.com/watch?v=ZBDZ...

View Ensembl Features on Protein-CDS Alignments - Jalview Select File ⇒ Fetch Sequences and select ENSEMBL from the list of databases in the New Sequence Fetcher dialog box, enter the accession number ENSG00000113924 and click OK. Progress is indicated in the status bar at bottom of the window.

And here is a link to the training exercise: www.jalview.org/tutorial/exe...

👀 Visualise pathogenic variants in Jalview's protein-CDS split screen window as you map these onto your favourite 3D molecular viewer! We have PyMol, ChimeraX, UCSF Chimera and JMol available for your analyses.

Watch our 'Genome to Function' video to find out how: www.youtube.com/watch?v=e/6a...

With thanks to @wellcometrust.bsky.social @bartongrp.bsky.social @gjbarton.bsky.social @foreveremain.bsky.social @stuartmac44.bsky.social @javierutges.bsky.social @khadijasvoice.bsky.social

💡Protein lovers - a brand NEW video exploring AlphaFold's pLDDT score in Jalview is out! Find out how you can select, hide and colour your alignments using this 3D structure prediction confidence metric.

▶️ Watch the full video here: www.youtube.com/watch?v=WVCM...

✏️ And here: www.jalview.org/tutorial/exe...

✏️ Hands-on exercises can be found here: www.jalview.org/tutorial/exe...

YouTube video by Jalview & Dundee Resource Online Training 3D Molecular Structure Jmol and UCSF Chimera viewers in Jalview

✨ Watch the training video: www.youtube.com/watch?v=yRBL...
PyMol and ChimeraX are supported in Jalview in a similar way.

💡Calling all visualisation enthusiasts - did you know Jalview can help you bring your alignments to life in more ways than one?

Experience the beauty of molecular graphics with four 3D viewers - PyMol, UCSF Chimera, JMol and ChimeraX - all accessible from Jalview!

@wellcometrust.bsky.social @bartongrp.bsky.social @gjbarton.bsky.social @foreveremain.bsky.social @stuartmac44.bsky.social @javierutges.bsky.social @khadijasvoice.bsky.social

💡What disorder predictors would you like to see in Jalview? Let us know in the comments below!

And here is an accompanying exercise to supercharge your prediction skills: www.jalview.org/tutorial/exe...

GlobPlot and DisEMBL in Jalview are also covered in the same training video. See here: www.youtube.com/watch?v=9OOK...

Learn how to analyse your sequences using JRonn and IUPred prediction methods in Jalview. Video here: www.youtube.com/watch?v=9OOK...

💡Curious about intrinsically disordered regions in your proteins? Jalview's got answers - FOUR of them, infact!

Many disease-associated proteins, including those involved in neurodegenerative disorders (e.g., Alzheimer's and Parkinson's) and cancer, contain IDRs.

Many thanks to our funders and collaborators for continuing to support this precious resource. @wellcometrust.bsky.social @bartongrp.bsky.social @gjbarton.bsky.social @foreveremain.bsky.social @khadijasvoice.bsky.social @stuartmac44.bsky.social @javierutges.bsky.social

Social media card celebrating IWD2025

👩‍🎓Last month, 60% of our YouTube audience was women. This International Women's Day, we are celebrating all the trailblazing women who watch our training videos online.

💕 Thank you for supporting our educational content!

Watch here: www.youtube.com/@jalviewtrai...

#IWD2025 #AccelerateAction

@bartongrp.bsky.social @gjbarton.bsky.social @wellcometrust.bsky.social @foreveremain.bsky.social main.bsky.social @stuartmac44.bsky.social sky.social @javierutges.bsky.social tges.bsky.social @khadijasvoice.bsky.social

❓Got a burning question you'd like to ask us? Help is a few clicks away!

✏️ Simply sign up to Jalview's Discourse and pop in your inquiries. We'll get right back to you!

⬇️ Link below: ⬇️
discourse.jalview.org

🤔 And while you're at it, why not take a look at a short exercise we put together to help you get a quick idea of using this feature in Jalview?

⬇️ See here: www.jalview.org/tutorial/exe...

✨Fun fact: Jalview can help you predict the secondary structures of proteins consisting of alpha-helices and beta-strands!

💡In this training video, Suzanne introduces the JPred server and explores various prediction methods for sequences.

⤵️ Watch here: www.youtube.com/watch?v=HW3k...

🏅Our award-winning Jalview Schools Workbook can help you power through A Level or AP Biology as you revise for your exams.

🦣 From the coronavirus to the woolly mammoth, we've got many exciting aspects from the world of genomics covered.

⬇️ Check it out today: www.jalview.org/schools/Scho...