582606 Introduction to bioinformatics (4 cr, Autumn 2007)

This course gives an introduction to the central topics in bioinformatics, and gives a foundation for further courses in the Master's Degree Programme in Bioinformatics (MBI). You do not need to be in MBI, however, to take the course! The course was previously given in Autumn 2006, and will follow roughly the same structure.

News

5.12.2006 Results from the separate exam 20.11. are available in CS intranet and on the second-floor bulletin board of the CS department. If you want to discuss grading, contact me.
19.11.2006 Some solution sketches are available for the course exam.
1.11.2006 Results from the course exam are available in CS intranet and on the second-floor bulletin board of the CS department. If you do not have a university student number, please contact Esa. If you want to discuss the grading, please come to Exactum A218 on Wednesday 7 November at 14.00-15.00. The first separate exam is held on Tuesday 20 November 16.00-20.00 Exactum A111 (check the time and place before exam). You need to register to the exam in ilmo.
15.10.2006 Additional material is available on neighbor-joining algorithm. Please give feedback on the course!
8.10.2006 Update on exercise 5: assignment 4 refers to matrix D in assignment 3, not in assignment 2.
3.10.2006 Posted fifth exercises. Note that the lecture on Tuesday 9 October will be held in Exactum B222. Information is also available on course grading and exams.
19.9.2006 Posted third exercises and lecture slides from Tue 18.9.
17.9.2006 Solutions to some exercise problems will be available here.
6.9.2006 First exercises are available.
3.9.2006 The lecture schedule, grading guidelines, and course exam date and place are available. Fixed the link to Molecular biology for computer scientists.
24.8.2006 Posted the tentative contents of the course.
14.8.2006 Course web page is open.

Lecture schedule & slides

Esa's lecture material (pages 1-224): [slides] [handouts]

Additional slides on neighbor-joining algorithm.

Exercises

Below you can find exercise questions for each week's session. The students are expected to prepare solutions to the questions before the exercise session and present their solutions in the session.

You can find solutions to some problems here.

Time and place

Enrolling for the course

Please use the registration system of the Department of Computer Science to enroll for the course.

Contents

This is the tentative list of topics covered on the course.

Course organizers

Grading

To successfully pass the course, you have to get 30 out of 60 points from the course exam and exercises.

You may also take a separate exam. In the first separate exam, you will get the maximum points of the following two options:

  1. Maximum of 50 points from the exam, max. 10 points from exercises (like in the course exam).
  2. Maximum of 60 points from the exam, no points from exercises.

In the second and subsequent separate exams, only the second option will be available (exercise points are not taken into account).

Exams

The course exam will be held after the course (check the time and place from below) in which you will have to answer 4-5 questions in 2.5 hours. The three-hour time slot given below includes some extra time in case the start of exam is delayed.

In a separate exam, you have 3.5 hours to answer 5-6 questions. Questions in separate exams are in general somewhat more difficult than course exam questions.

Exams cover course book chapters 2, 3, 6, 7, 11 and 12, and lecture slides.

The course exam of the previous course is available here: [ps] [pdf]

Course book

Lectures will be based on Richard C. Deonier, Simon Tavaré and Michael S. Waterman: Computational Genome Analysis: An Introduction, Springer, 2005.

Additional material

Previous update: 05.12.2007 11:27 - Esa Pitkänen