Organizer: University of Cambridge

Host institution: University of Cambridge Bioinformatics Training

Start: Monday, 11 May 2015 @ 08:30

End: Wednesday, 13 May 2015 @ 15:00

Venue: Craik-Marshall Building

City: Cambridge

Country: United Kingdom

Postcode: CB2 3AR

Target audience:
  • Graduate students
  • Postdocs and Staff members from the University of Cambridge
  • Institutions and other external Institutions or individuals
Description:

Jalview hands-on training course is for anyone who works with sequence data and multiple sequence alignments from proteins, RNA and DNA.

Jalview is free software for protein and nucleic acid sequence alignment generation, visualisation and analysis. It includes sophisticated editing options and provides a range of analysis tools to investigate the structure and function of macromolecules through a multiple window interface. For example, Jalview supports 8 popular methods for multiple sequence alignment, prediction of protein secondary structure by JPred and disorder prediction by four methods. Jalview also has options to generate phylogenetic trees, and assess consensus and conservation across sequence families. Sequences, alignments and additional annotation can be accessed directly from public databases and journal-quality figures generated for publication.

The course involves of a mixture of talks and hands-on exercises.

Day 1 is an introduction to protein multiple sequence alignment editing and analysis with Jalview.

Day 2 focuses on using Jalview for RNA sequence analysis, and also integrating cDNA and protein analysis and covers more advanced applications after lunch.

Day 3 concentrates on protein secondary structure prediction with JPred version 4 as well as protein sub-family analysis to identify functionally important residues.

There will be opportunities for attendees to get advice on analysis of their own sequence families.

Further information, including some training videos, is also available.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.''

Event type:
  • Workshops and courses

Keywords: HDRUK

Protein and RNA multiple sequence alignment, protein secondary structure prediction, trees, sub-family and function analysis with Jalview https://tess.elixir-europe.org/events/protein-and-rna-multiple-sequence-alignment-protein-secondary-structure-prediction-trees-sub-family-and-function-analysis-with-jalview Jalview hands-on training course is for anyone who works with sequence data and multiple sequence alignments from proteins, RNA and DNA. [Jalview](http://www.jalview.org) is free software for protein and nucleic acid sequence alignment generation, visualisation and analysis. It includes sophisticated editing options and provides a range of analysis tools to investigate the structure and function of macromolecules through a multiple window interface. For example, Jalview supports 8 popular methods for multiple sequence alignment, prediction of protein secondary structure by [JPred](http://www.compbio.dundee.ac.uk/jpred4) and disorder prediction by four methods. Jalview also has options to generate phylogenetic trees, and assess consensus and conservation across sequence families. Sequences, alignments and additional annotation can be accessed directly from public databases and journal-quality figures generated for publication. The course involves of a mixture of talks and hands-on exercises. Day 1 is an introduction to protein multiple sequence alignment editing and analysis with Jalview. Day 2 focuses on using Jalview for RNA sequence analysis, and also integrating cDNA and protein analysis and covers more advanced applications after lunch. Day 3 concentrates on protein secondary structure prediction with JPred version 4 as well as protein sub-family analysis to identify functionally important residues. There will be opportunities for attendees to get advice on analysis of their own sequence families. Further information, including some training videos, is also [available](http://www.jalview.org//training/training-courses/Protein-and-RNA-multiple-sequence-alignment-protein-secondary-structure). Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://marstons.bio.cam.ac.uk/course-booking/?CourseID=Protein%20and%20RNA%20multiple%20sequence%20alignment%20and%20functional%20analysis%20with%20Jalview_gsls-jalview_2015.05.11-13_1442887&CourseName=Protein%20and%20RNA%20multiple%20sequence%20alignment%20and%20functional%20analysis%20with%20Jalview&CourseDate=2015.05.11-13&CourseDuration=3&EventID=1442887).'' 2015-05-11 08:30:00 UTC 2015-05-13 15:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK