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Sequence Analysis:
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Registration has closed. All spots have been filled and the waiting list is full. If you registered for this course, you will receive an email notifying you of your enrollment status. It is expected this course will be offered again in Fall 2017.

Dates: [ one class in four parts ]

Part 1: Tuesday, November 1 - 1:30-3:30pm
Part 2: Wednesday, November 2 - 1:30-3:30pm
Part 3: Tuesday, November 8 - 1:30-3:30pm
Part 4: Wednesday, November 9 - 1:30-3:30pm

Hands-on computer based workshop on homology search tools, pairwise and multiple sequence alignments, phylogenetic tree reconstruction and promoter analysis.

Organizer: Lucy Skrabanek (ICB, WCM)

Goals and Objectives: This workshop is divided into four two-hour sessions. Each session begins with an introduction to the tools being taught in that session, followed by hands-on practical exercises. This workshop focuses on web-based bioinformatics tools. At the end of the workshop, attendees are expected to have a solid foundation in the use of the fundamental tools of bioinformatics.

Size: 15


Part 1 (day 1: 2 hours)
This section introduces homology searching tools with a particular emphasis on the BLAST suite of programs. Students learn how to optimize searches, and how to maximize biologically meaningful matches. The BLOCKS server is also described.

Part 2 (day 2: 2 hours)
Tools for pairwise and multiple sequence alignments are discussed. Students learn how best to configure the parameters in ClustalW to obtain meaningful alignments.

Part 3 (day 3: 2 hours)
The different methods of phylogenetic tree reconstruction are compared, and students are taught to evaluate the quality and robustness of the resulting tree.

Part 4 (day 4: 2 hours)
This section deals with promoter databases, and promoter analysis, especially searching promoters for transcription factor binding sites.