The fifth meeting of the Scottish Phylogeny Discussion Group will be held by Biomathematics & Statistics Scotland at the James Hutton Institute, Invergowrie (near Dundee), on 18 February 2013. The meeting will start with lunch at 1 PM.
Dr Jim Procter, Jalview Coordinator, College of life sciences, University of Dundee will talk on:
“Creation, curation and analysis of Protein and RNA alignments with Jalview”.
This will be followed by a range of talks by phylogeny researchers based in Scotland.
To register to attend, please see:
http://biology.st-andrews.ac.uk/cegg/spdg
Registration includes free buffet lunch, tea and coffee. If you wish to come for dinner after the meeting (charged at cost), please indicate this when you register.
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Abstract: Creation, curation and analysis of Protein and RNA alignments with Jalview
Jalview (www.jalview.org) is a BBSRC funded open source tool for the visualisation and analysis of protein and nucleic acid sequence alignments that is widely used in teaching and research. Available as a web based applet, or Desktop application, version 2.8 incorporates Jmol, a molecular structure viewer, and the RNA structure viewer VARNA. The Jalview Desktop supports figure generation, and provides access to a range of sequence, alignment, 3D structure and annotation databases, and analysis services provided by the University of Dundee and Free University of Amsterdam. It also acts as a graphical client for the alignment, protein disorder prediction and amino acid conservation analysis programs made available as Java Bioinformatics Analysis Web Services (http://www.compbio.dundee.ac.uk/jabaws).
In this talk, I will highlight the key developments in Jalview that have made it possible to create, curate and analyse protein and RNA sequence alignments in the context of structure, biological knowledge and evolutionary analyses. I’ll also discuss some of the current challenges with regard to the creation, curation and analysis of alignments, and how they fit with Jalview’s development roadmap.