Computational methods in bioinformatics (2014-2015)

Practical 4

Review of a topic in structural bioinformatics

Aims

Objectives

After this practical you will be able to:

Introduction

In this exercise you will investigate a topic within structural bioinformatics. You will summarise the problem and computational solutions to that problem.

After reading your document the reader should:

You can make the following assumptions about the reader:

You should use a clear and straightforward writing style. You may refer to other research articles in your report.

In addition to a report on the topic investigated, you should prepare a short (5 minute) presentation on one of the methods investigated.


Further instructions (2012-12-01)

For most topics, a good report will include consideration of two or three research articles related to that topic.

In the case of "Protein folding on a lattice", the problem addressed is a toy problem that is easy to understand and describe, so this is potentially an easier topic to investigate than many of the others. This will be taken into account when grading, so I recommend those aiming for a high grade to consider another topic. A very good report on this topic is possible, but should contain discussion and comparison of more than three research articles.

Please indicate your preferred topic using this Doodle poll. Here, the day of the month (1-9) corresponds to the nine topics:

  1. Structural alignment
  2. Side chain modelling
  3. Channels
  4. Protein folding on a lattice
  5. Fold recognition
  6. Multi-resolution modelling
  7. Mesostates
  8. Co-evolution
  9. Protein design

The time of day (usually 1-3) corresponds to slots for that topic.

If your preferred topic is not available, please add a comment to the Doodle poll and send me an e-mail message. I'd like as many people as possible to have their first choice, and I'll consider opening extra slots for some topics to allow this, possibly identifying additional articles for that topic.

Later this week we'll start deciding who will present which paper. I suggest that those in "slot 1" for a topic have first choice, those in "slot 2" can have second choice, and so on.

If you need to present on 9 or 11 December, please send me an e-mail message stating on which of these dates you would like to present.


Suggested topics

Structural alignment

Side chain modelling

Channels

Protein folding on a lattice

Fold recognition

Multi-resolution modelling

Mesostates

Co-evolution

Protein design


What to submit

You should submit PDF files via the Fire system before 23:59 on Thursday 18 December 2014.


Last Modified: 5 December 2014 by Graham Kemp