Uusi opinto-opas (sisältäen myös opetusohjelmat) lukuvuodelle 2018-2019 sijaitsee osoitteessa https://opas.peppi.utu.fi . Tältä sivustolta löytyvät enää vanhat opinto-oppaat ja opetusohjelmat.

The new study guide (incl. teaching schedules) for academic year 2018-2019 can be found at https://studyguide.utu.fi. This site contains only previous years' guides.

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Archived teaching schedules 2017–2018
You are browsing archived teaching schedule. Current teaching schedules can be found here.
FYGE5430 Next generation sequencing (NGS) and its applications 3 ECTS
Periods
Period I Period II Period III Period IV
Language of instruction
English
Type or level of studies
Advanced studies
Course unit descriptions in the curriculum
Biology
Department of Biology

General description

This course will teach the basics of typical protocols currently used in ecology and evolution research based on next generation sequencing and mass spectrometry technologies. Students will become familiar on the nature of data produced by these technologies and will learn ways to excavate biologically relevant information to address a wide range of scientific questions.

The course will cover the following topics: (1) restriction site associated DNA marker (RAD) analysis, (2) single nucleotide polymorphism (SNP) calling and analysis, (3) de novo transcriptome assembly, (4) differential gene expression analysis using RNA sequencing data, (5) differential gene expression analysis using high resolution mass spectrometry (i.e. shotgun proteomics) data, and (6) gene ontology (GO) annotation and enrichment analysis.

Wet lab protocols will be minimally covered; instead this course will focus on analytical procedures after the data have been generated. As such, some knowledge in Linux and R will be beneficial for optimal following the course although the basics will be taught so even students naïve to bioinformatics will be able to complete the practical exercises.

The course will last five days, and each day will include five teaching hours. We will start each day with a theoretical presentation followed by practical exercises of bioinformatics nature. PC machines will be available for students, but students are not discouraged from bringing their own computers.

Following the completion of the course, students will have to take an exam on a separate day. For more information, please e-mail the course responsible, Spiros Papakostas.

Teacher responsible

Spiros Papakostas
spipap[ät]utu.fi

Teaching

9-Apr-2018 – 19-Apr-2018
Lectures
Mon 9-Apr-2018 at 8-14, ATK247
Tue 10-Apr-2018 at 8-14, ATK247
Wed 11-Apr-2018 at 8-14, ATK247
Wed 18-Apr-2018 at 8-14, ATK247
Thu 19-Apr-2018 at 8-14, ATK247

Evaluation criteria

Practicals, exam

Further information

The course will be given as 3ECTS in Spring 2018.