Barton Group
@bartongrp.bsky.social
News from Geoff Barton's Computational Biology Research Group.
Home of Jalview https://www.jalview.org, JPred and much more! See: https://bit.ly/3YXtgeq for the publications.
https://bartongroup.org
https://jalview.org
Also see: @gjbarton.bsky.social
Home of Jalview https://www.jalview.org, JPred and much more! See: https://bit.ly/3YXtgeq for the publications.
https://bartongroup.org
https://jalview.org
Also see: @gjbarton.bsky.social
Reposted by Barton Group
Thanks James! @chromamagic.com All building on the beginnings you helped make!
Wow. I was thinking of writing a Jalview / JPred origin story. What an amazing tale of over a quarter century of hard effort you and your team have put in.
Sustainable scientific software? ✅ ✅ ✅
I wonder how much direct economic development Dundee has seen through all of your grants?
Sustainable scientific software? ✅ ✅ ✅
I wonder how much direct economic development Dundee has seen through all of your grants?
July 18, 2025 at 10:26 AM
Thanks James! @chromamagic.com All building on the beginnings you helped make!
Reposted by Barton Group
Oh, an origin story from your perspective would be cool. We could compare notes!
Sustaining scientific software long-term is very hard...
35 postdocs/staff (3-20 yrs!) and 16 Ph.D. students all funded on external grants since 2001. I guess they buy stuff locally so help the economy! 😜
Sustaining scientific software long-term is very hard...
35 postdocs/staff (3-20 yrs!) and 16 Ph.D. students all funded on external grants since 2001. I guess they buy stuff locally so help the economy! 😜
Wow. I was thinking of writing a Jalview / JPred origin story. What an amazing tale of over a quarter century of hard effort you and your team have put in.
Sustainable scientific software? ✅ ✅ ✅
I wonder how much direct economic development Dundee has seen through all of your grants?
Sustainable scientific software? ✅ ✅ ✅
I wonder how much direct economic development Dundee has seen through all of your grants?
July 18, 2025 at 10:27 AM
Oh, an origin story from your perspective would be cool. We could compare notes!
Sustaining scientific software long-term is very hard...
35 postdocs/staff (3-20 yrs!) and 16 Ph.D. students all funded on external grants since 2001. I guess they buy stuff locally so help the economy! 😜
Sustaining scientific software long-term is very hard...
35 postdocs/staff (3-20 yrs!) and 16 Ph.D. students all funded on external grants since 2001. I guess they buy stuff locally so help the economy! 😜
Reposted by Barton Group
Done technical updates (bootstrap 3 to bootstrap 5) and some content revision on our group website. See the link(s) below to learn more about our work and the software/databases we support such as @jalview.bsky.social Jpred and more!
www.bartongroup.org
www.compbio.dundee.ac.uk/index.html
www.bartongroup.org
www.compbio.dundee.ac.uk/index.html
The Barton Group | Bioinformatics Research | Division of Computational Biology | School of Life Sciences |
University of Dundee
The Barton Group is Geoff Barton's Bioinformatics Research Group in the Division of Computational Biology, School of Life Sciences, University of Dundee, UK.
www.compbio.dundee.ac.uk
July 18, 2025 at 10:32 AM
Done technical updates (bootstrap 3 to bootstrap 5) and some content revision on our group website. See the link(s) below to learn more about our work and the software/databases we support such as @jalview.bsky.social Jpred and more!
www.bartongroup.org
www.compbio.dundee.ac.uk/index.html
www.bartongroup.org
www.compbio.dundee.ac.uk/index.html
Reposted by Barton Group
How to explore #AlphaFold quality measures interactively for multiply aligned proteins in Jalview! 😀
📣 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...
▶️ Watch the new training video here: www.youtube.com/watch?v=jowU...
July 17, 2025 at 10:44 AM
How to explore #AlphaFold quality measures interactively for multiply aligned proteins in Jalview! 😀
Reposted by Barton Group
I'll be attending the @iscb.bsky.social #ISMBECCB2025 conference in Liverpool from July 20-24. Who else is coming? Register here and don't miss it. It's going to be great! invt.io/1bxbm6fohph
I'll present my PhD work at the @bartongrp.bsky.social on protein-ligand interactions at the 3DSIG panel!
I'll present my PhD work at the @bartongrp.bsky.social on protein-ligand interactions at the 3DSIG panel!
June 4, 2025 at 9:04 AM
I'll be attending the @iscb.bsky.social #ISMBECCB2025 conference in Liverpool from July 20-24. Who else is coming? Register here and don't miss it. It's going to be great! invt.io/1bxbm6fohph
I'll present my PhD work at the @bartongrp.bsky.social on protein-ligand interactions at the 3DSIG panel!
I'll present my PhD work at the @bartongrp.bsky.social on protein-ligand interactions at the 3DSIG panel!
Reposted by Barton Group
A great way for Javier to finish his time in @bartongrp.bsky.social with our first journal cover! Shame they don’t print them any more! 🤣🤣
The @narjournal.bsky.social Annual Web Server Issue is now finalised. Congratulations to all other authors for their excellent resources.
I am thrilled to share that one of our #LIGYSIS-web paper figures was selected as the cover image for this issue. Check it out here: lnkd.in/dXAb6jwv!
I am thrilled to share that one of our #LIGYSIS-web paper figures was selected as the cover image for this issue. Check it out here: lnkd.in/dXAb6jwv!
July 11, 2025 at 9:17 PM
A great way for Javier to finish his time in @bartongrp.bsky.social with our first journal cover! Shame they don’t print them any more! 🤣🤣
Reposted by Barton Group
Accessing a wealth of structure data to integrate with your #MSA is possible accessing the #3DBeacons network through #Jalview.
Get experimentally determined structures from @pdbeurope.bsky.social as well as predicted structure models from #AlphaFoldDB, @swiss-model.bsky.social and other providers!
Get experimentally determined structures from @pdbeurope.bsky.social as well as predicted structure models from #AlphaFoldDB, @swiss-model.bsky.social and other providers!
🚀 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...
▶️ Watch our instructional video: www.youtube.com/watch?v=ZBDZ...
Using 3D Beacons to access AlphaFoldDB, PDB and more in Jalview
YouTube video by Jalview & Dundee Resource Online Training
www.youtube.com
May 16, 2025 at 10:07 AM
Accessing a wealth of structure data to integrate with your #MSA is possible accessing the #3DBeacons network through #Jalview.
Get experimentally determined structures from @pdbeurope.bsky.social as well as predicted structure models from #AlphaFoldDB, @swiss-model.bsky.social and other providers!
Get experimentally determined structures from @pdbeurope.bsky.social as well as predicted structure models from #AlphaFoldDB, @swiss-model.bsky.social and other providers!
Reposted by Barton Group
I am #exhilarated to share that our new paper "LIGYSIS-web: a resource for the analysis of protein-ligand binding sites" is now published in @narjournal.bsky.social! After almost two years of development and more than 600 commits, LIGYSIS-web is out!
📜 : tinyurl.com/utges-LIGYSI...
📜 : tinyurl.com/utges-LIGYSI...
May 19, 2025 at 10:37 AM
I am #exhilarated to share that our new paper "LIGYSIS-web: a resource for the analysis of protein-ligand binding sites" is now published in @narjournal.bsky.social! After almost two years of development and more than 600 commits, LIGYSIS-web is out!
📜 : tinyurl.com/utges-LIGYSI...
📜 : tinyurl.com/utges-LIGYSI...
Reposted by Barton Group
Two weeks ago, I reached a significant #milestone my career, marking my most substantial #achievement yet. Following four and a half years of dedicated work at the University of #Dundee and a successful #PhD viva defence, I attained the title of Doctor of Philosophy in #Structural #Bioinformatics
May 16, 2025 at 9:48 AM
Two weeks ago, I reached a significant #milestone my career, marking my most substantial #achievement yet. Following four and a half years of dedicated work at the University of #Dundee and a successful #PhD viva defence, I attained the title of Doctor of Philosophy in #Structural #Bioinformatics
Reposted by Barton Group
Congratulations to Javier @javierutges.bsky.social on his successful PhD viva today!
@bartongrp.bsky.social
@bartongrp.bsky.social
May 2, 2025 at 3:24 PM
Congratulations to Javier @javierutges.bsky.social on his successful PhD viva today!
@bartongrp.bsky.social
@bartongrp.bsky.social
Reposted by Barton Group
💡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!
Experience the beauty of molecular graphics with four 3D viewers - PyMol, UCSF Chimera, JMol and ChimeraX - all accessible from Jalview!
April 17, 2025 at 3:34 PM
💡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!
Experience the beauty of molecular graphics with four 3D viewers - PyMol, UCSF Chimera, JMol and ChimeraX - all accessible from Jalview!
Reposted by Barton Group
💡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 disease-associated proteins, including those involved in neurodegenerative disorders (e.g., Alzheimer's and Parkinson's) and cancer, contain IDRs.
April 4, 2025 at 5:49 PM
💡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 disease-associated proteins, including those involved in neurodegenerative disorders (e.g., Alzheimer's and Parkinson's) and cancer, contain IDRs.
Reposted by Barton Group
👩🎓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
💕 Thank you for supporting our educational content!
Watch here: www.youtube.com/@jalviewtrai...
#IWD2025 #AccelerateAction
March 11, 2025 at 2:21 PM
👩🎓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
💕 Thank you for supporting our educational content!
Watch here: www.youtube.com/@jalviewtrai...
#IWD2025 #AccelerateAction
Reposted by Barton Group
❓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
✏️ Simply sign up to Jalview's Discourse and pop in your inquiries. We'll get right back to you!
⬇️ Link below: ⬇️
discourse.jalview.org
March 5, 2025 at 1:14 PM
❓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
✏️ Simply sign up to Jalview's Discourse and pop in your inquiries. We'll get right back to you!
⬇️ Link below: ⬇️
discourse.jalview.org
Reposted by Barton Group
2024 was a fun year for us at Jalview! We've been busy, so here's a little 'scrapbook' for you to see all the exciting things we got up to last year: www.youtube.com/watch?v=k6Cf...
January 20, 2025 at 12:16 PM
2024 was a fun year for us at Jalview! We've been busy, so here's a little 'scrapbook' for you to see all the exciting things we got up to last year: www.youtube.com/watch?v=k6Cf...
Reposted by Barton Group
💡Did you know you can use Jalview to view the coding DNA of your protein sequences?
This can help you explore the effect of genetic mutations on proteins in 3D.
The first video of our 'Genome to Function' mini-series shows you how to do this. Watch here: www.youtube.com/watch?v=qFMJ...
This can help you explore the effect of genetic mutations on proteins in 3D.
The first video of our 'Genome to Function' mini-series shows you how to do this. Watch here: www.youtube.com/watch?v=qFMJ...
February 7, 2025 at 3:49 PM
💡Did you know you can use Jalview to view the coding DNA of your protein sequences?
This can help you explore the effect of genetic mutations on proteins in 3D.
The first video of our 'Genome to Function' mini-series shows you how to do this. Watch here: www.youtube.com/watch?v=qFMJ...
This can help you explore the effect of genetic mutations on proteins in 3D.
The first video of our 'Genome to Function' mini-series shows you how to do this. Watch here: www.youtube.com/watch?v=qFMJ...
Reposted by Barton Group
✨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...
💡In this training video, Suzanne introduces the JPred server and explores various prediction methods for sequences.
⤵️ Watch here: www.youtube.com/watch?v=HW3k...
February 27, 2025 at 6:49 PM
✨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...
💡In this training video, Suzanne introduces the JPred server and explores various prediction methods for sequences.
⤵️ Watch here: www.youtube.com/watch?v=HW3k...
Reposted by Barton Group
🏅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...
🦣 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...
February 21, 2025 at 11:05 AM
🏅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...
🦣 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...
Reposted by Barton Group
A lovely thread by @javierutges.bsky.social about our new paper on ligand binding site data and binding site predictors. 😀
Our paper "Comparative evaluation of methods for the prediction of protein-ligand binding sites" is now published on Journal of Cheminformatics!
🔗 tinyurl.com/Utges-LBS
On this paper we benchmark 13 original ligand site prediction tools and 15 variants on our curated reference dataset: #LIGYSIS!
🔗 tinyurl.com/Utges-LBS
On this paper we benchmark 13 original ligand site prediction tools and 15 variants on our curated reference dataset: #LIGYSIS!
November 19, 2024 at 12:32 PM
A lovely thread by @javierutges.bsky.social about our new paper on ligand binding site data and binding site predictors. 😀
Reposted by Barton Group
The first in a collection of papers by @javierutges.bsky.social on #ligand #binding . This one focuses on defining ligand binding sites from fragment screening data, then identifying which sites are most likely to be functional.
Thought I'd start on @bsky.app with a thread about our paper on characterising #fragment #screening binding sites published on @natureportfolio.bsky.social Comms Bio
This work sets the scene for our current work on #LIGYSIS
Thread is from @gjbarton.bsky.social on X
🔗 tinyurl.com/Utges-FRAGSYS
This work sets the scene for our current work on #LIGYSIS
Thread is from @gjbarton.bsky.social on X
🔗 tinyurl.com/Utges-FRAGSYS
November 18, 2024 at 11:53 AM
The first in a collection of papers by @javierutges.bsky.social on #ligand #binding . This one focuses on defining ligand binding sites from fragment screening data, then identifying which sites are most likely to be functional.