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Archived Curricula Guide 2011–2012
Curricula Guide is archieved. Please refer to current Curricula Guides
BIOI4211 Genomics, Transcriptomics and Proteomics 4 ECTS
Organised by
Bioinformatics
Person in charge
Martti Tolvanen, Csaba Ortutay
Preceding studies
Compulsory:
Alternatively BIKE2080

General description

This course facilitates the conceptual transition from individual genes and proteins to full datasets of genomes, transcriptomes and proteomes. In addition, you learn how to utilize large datasets for extracting information of individual genes and proteins.

Learning outcomes

Familiarity with Internet sources for genome-wide data; basic skills in using tools at these web sites; understanding how modern high-throughput methods generate sequence data and gene and protein expression data; practical skill of using genome browsers to access genome data and genome comparison data; understanding gene prediction and genome annotation pipelines; skill of perfoming individual gene predictions; understanding different levels of variation in human genomes; understanding basic workflows of microarray data analysis and next-generation sequencing data analysis; basic knowledge of experimental methods in proteomics and metabolomics which enables understanding data analysis in these fields; skill of identifying proteins from mass spectroscopic data.

Contents

Next-generation sequencing (NGS); Ensembl genome browser and its comparative genomics tools; gene variations and variation databases; metagenomics; transcript expression data from microarrays and NGS, and principles of their analysis; finding over- and under-expressed genes from expression data; clustering of data; concept of functional enrichment; proteomics of protein expression, interactions and structures; and metabolic networks and metabolomics data.

Teaching methods

Teaching method Contact Online
Independent work 0 h 80 h

The course can be started at any time, with a deadline of 12 weeks after starting.

Teaching language

English

Modes of study

In addition to your reflection and summaries, the learning diary will contain exercises and assignments, which will be chosen individually, to be discussed with your tutor. Your learning diary can be written in Finnish if agreed with the web tutor.

Evaluation and evaluation criteria

Numeric 1-5.
Your learning will be evaluated separately for the the sections of genomics, transcriptomics and proteomics, based on your learning diary work. Evaluation criteria include demonstrating the understanding of key concepts in your diary text, completing exercises successfully, working in the given 12-week deadline.

Recommended year of study

1. year autumn
1. year spring

First year in MSc or third year in BSc.

Study materials

Internet materials: Course pages and external web sites; original articles.

 

Belongs to following study modules

Institute of Biomedical Technology
Major subject studies in Bioinformatics (Bioinformatics)
2011–2012
Teaching
Archived Teaching Schedule. Please refer to current Teaching Shedule.
BIOI4211 Genomics, Transcriptomics and Proteomics
Institute of Biomedical Technology