Bioinformatics courses / Autumn 2009

This list includes the major courses. Note that some of them can also be included as minor subject studies in Computer science, Statistics, Biology.

582606 Introduction to Bioinformatics (4 credits, Compulsory)
University Lecturer Sirkka-Liisa Varvio, Tue, Thu 14-16 Exactum D122, Exercises Thu 16-18 Exactum (I period)
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). Course exam 21st of October from 16.00 to 19.00.
Placement: 1st year

T-61.5120 Computational genomics (4-7 credits)
Teaching Researcher Fabian Hoti, Fri 9-14 T-building room A328 (I-II periods)
Algorithms and models for biological sequences and genomics.
Placement: 1st year

582653 Computational methods of systems biology (4 credits)
Professor Esko Ukkonen, Tue, Thu 10-12 Exactum , Exercises Thu 14-16 Exactum (II period)
The course is an advanced introduction to computational methods for analysing genomic and gene expression data to find different functional units (such as genes) and regulatory structures and relations (such as gene enhancers).
Placement: 1st or 2nd year

T-61.5110 Modelling biological networks L (5-7 credits)
Professor Harri Lähdesmäki, Mon 10-14, Tue 10-12 T-building room A238 (I period)
Placement: 1st or 2nd year

57730 Sequence evolution from molecules to genomes (4 credits)
University Lecturer Sirkka-Liisa Varvio, Tue 14-18, Exactum B120 (II period)
This course can also be included as minor subject studies in biology by replacing bioinformatic exercises with biological essays.
Placement: 1st year

58307312 Master's thesis seminar
University Lecturer Sirkka-Liisa Varvio, Mon 16-17 Exactum room C220 (I-IV periods, Compulsory)
While working on the Master's thesis, the MBI student is expected to participate in the Master's thesis seminar on a regular basis and give two presentations, one on the research plan and the other on the (nearly) completed thesis. The Master's thesis seminar operates throughout the year.
Placement: 1st and 2nd year

57732 Seminar on statistical methods in bioinformatics (3 credits)
Senior Research Scientist Mikko J. Sillanpää, Thu 12-14, Exactum B120 (II period)
Placement: 2nd year

Programming in Python (4 credits)
Jarkko Toivonen, Exactum (I period)
This course is for minor subject studies in computer science.

Design and analysis of genome-wide association studies, fall 2009 (3 credits)
Adjunct prof. Samuli Ripatti, Computer class C128, Exactum.
Lectures: 2/12/2009(Wed),3/12/2009(Thu) and 5/12/2009(Fri), 09:00-16:00
This is an intensive course for advance studies.

Courses in biology and medicine / Autumn 2009

399672 Biology for methodological scientists (8 credits, Compulsory)
This course gives an introduction to basic concepts and techniques of molecular biology. The course is particularly tailored for students with no previous molecular biology background. The course consists of four modules, 2 credits each: Genetic analysis reading group(I period), Sequencing and microarrays (II period), Medical genetics and plunge into development biology (III and IV periods). Each module has its own homepage which includes the time schedule, registration, grading and examination information.
Genetic analysis reading group (2 credits)
Maral Jamshidi, and Sirkka-Liisa Varvio (I period).
Microarrays and next-generation sequencing (2 credits)
Henrik Edgren (II period).
The goal of this course is to give students an understanding of how microarray and next generation sequencing techniques work in the laboratory and what kind of biological problems they can be applied to. See course area in moodle for more details.
Placement: 1st year (I-IV periods)

399673 Measurement techniques (6 credits, Compulsory)
This lab course introduces students to molecular biology technologies. The course is particularly tailored for students with no previous molecular biology background. The course comprises six modules, which cannot be taken separately: How to work in the laboratory, Microarrays, Mass spectrometry, SNP genotyping, Cellular imaging, In situ hybridization. Each module has its own home page (links to be added here) which includes course content, schedule and contact details of teachers. There is no examination. An accepted performance of the course requires that the student takes part in all teaching sessions. Missing a session can be compensated by making a task given by the coordinator of the module.
How to work in laboratory, (Link to be added)
Ville Pulkkinen (I period)
Microarrays, (Link to be added)
N.N. II period.
Placement: I-IV periods, 1st year

Links to other biology courses:

Department of Biological and Environmental Sciences(Viikki) and Faculty of Agriculture and Forestry (Viikki)

Courses in computer science, mathematics and statistics / Autumn 2009

Courses listed below are suitable for MBI minor subject studies. Other courses may be suitable as well.

Introduction to Statistics (10 credits)
Xiaoin Dong, Tue 8-10, U40 Room 7, Fri 10-12 in U40 Room 9, starting on September 15. U40 stands for Unioninkatu 40, Metsätalo. (I-II periods).
This course is for students with no previous studies in statistics.

Introduction to Programming (5 credits)
Assistant Professor Arto Wikla, and Henning Lübbers
A weekly teaching group for foreign students
Starts Monday September 7th, afterwards Mondays 12-14 and Thursdays 14-17 (Auditorium A111, Exactum)
This course is for students with no previous studies in computer science.

T-61.5060 Algorithmic Methods of Data Mining L (5 credits)
Academy Professor Heikki Mannila (II period)

Information-Theoretic Modeling (4 credits)
Teemu Roos, Lectures(Period I: 8.9-16.10 Tue & Fri 10-12, C222, Exactum), Exercises(15.9-13-10. Tue 12-14 B119 Exactum)

Project in Information-Theoretic Modeling (2 credits)
Teemu Roos, Exactum (II period)

Introduction to Bayesian methods and WinBUGS
J Ranta, 31.8.-11.9. Exactum B120

Introduction to Machine Learning (4 credits)
Hannes Wettig, Wed, Fri 12-14 Exactum C222 (II period)

T-61.3050 Machine Learning: Basic Principles (5 credits) (Place: TKK)
Starting September 7th, 2009. Lectures(wed and fri 10-12 in T2), Exercises (wed and fri 12-14 in T3 starting one week later) (I period)
Check course webpage for more information.

T-61.5130 Machine Learning and Neural Networks L (5 credits)
Professor Juha Karhunen (II period)

T-61.3040 Statistical Signal Modeling (5 credits)(Place: TKK)
D.Sc. (Tech.) Jaakko Peltonen (I-II periods)

Mathematics of infectious diseases (10 credits)
Postdoc Barbara Boldin (I-II periods)

Mathematical modelling (10 credits)
University lecturer Stefan Geritz (I-II periods)

T-61.5080 Signal processing in neuroinformatics (5 credits)
Adjunct Professor Ricardo Vigario, T-building room TBA (I-II periods)
The goal of the seminar is to give an overview of some of the main biomedical signal processing techniques, with clear emphasis to EEG and MEG.
Placement: 1st or 2nd year

Language courses