Length: 1 day
Location: Foster Court B29, University College London, Gower Street, London, UK

We will be holding a one-day Jalview hands-on workshop on Monday 15th December 2014 at University College London, hosted by the Orengo Group.

The training session slides can be accessed:

Location and Registration

The course will be held in IT Suite B29 in Foster Court (click for map), which is in University College London’s Bloomsbury Campus.

Registration costs £15 for students and £25 for everyone else. This covers refreshments, lunch, and course materials.

Sign up for the workshop at the Dundee eShop. The registration deadline has been extended to 4th December 2014

Who should attend?

Thishands-on tutorialcourse is for anyone who works with biological sequences, it involves of a mixture of talks and hands-on exercises.

Schedule for the Day:

8.30 Registration

9am Overview of the day

9.15-10.30 Session 1: Introduction to Jalview

Starting the application, importing alignments

Alignment editing, colouring, and creating figures

10.30-11.00 Morning Coffee break

11.00-12.30 Session 2: Alignment and alignment analysis

Creating sequence alignments,Importing and calculating trees

Tree based alignment analysis,Viewing sequence annotation

12.30-1.30 Lunch (held in Roberts Foyer G02 (click for map))

1.30-3pm Session 3: Annotating sequences and alignments

Protein secondary structure and protein disorder prediction

Working with alignment annotation

3pm-3.30 Afternoon Coffee Break

3.30-4.45 Session 4: Working with molecular structures

Viewing 3D structures and superposing them using the alignment

Viewing RNA secondary structures in 2D and 3D

4.45-5pm Wrap up - what we didn’t cover today

Course content

The morning session covers introductory material suitable for anyone not familiar with working with sequences and sequence alignments, or who has never edited or published alignments with Jalview. It also provides an introduction to tree based alignment analysis, which is one of the fundamental ways in which biological function and structural information can be extracted from sequence alignments.

The afternoon session provides an opportunity to explore Jalview’s web based functions, including protein secondary structure and disordered region prediction. The final session focuses on exploring 2D and 3D molecular structure information in the context of multiple sequence alignments.

The material is based on the ‘Introduction to Jalview’ manual which is available from

Workshop poster avaialble here.

Date: 15-12-2014

Course: Jalview workshop

Location Foster Court B29, University College London, Gower Street, London, UK

Duration: 1 day

Posted date: 2014-10-16