course-details-portlet

BT2100 - Computational Biotechnology

About

New from the academic year 2021/2022

Examination arrangement

Examination arrangement: Portfolio assessment
Grade: Letters

Evaluation Weighting Duration Grade deviation Examination aids
Group project II 25/100
Group project I 25/100
School exam 50/100 3 hours D

Course content

The goal of this course is to introduce the fields of bioinformatics and computational biology and prepare the students to perform computational tasks in a wide variety of biotechnological domains. The students will improve the general-purpose python programming skills obtained in the previous semester through biology-oriented exercises, such as accessing bioinformatics databases, processing experimental datasets, and building simple models of biological systems. Given that this field is still changing at a fast pace, we will focus on using well-established tools and resources that are likely to be relevant in the long term, such as those provided by the European Institute of Bioinformatics and the ELIXIR framework.   

Part I - From genes to functions 

  • The history of genome sequencing 
  • Methods for genome assembly 
  • Standard file formats and libraries 
  • Sequence alignments 
  • Building phylogenetic trees 
  • Functional annotation and ontologies 
  • Programmatic access to bioinformatic resources   

Part II - From functions to systems 

  • Experimental methods for cellular phenotyping 
  • Omics data (transcriptomics, proteomics, metabolomics) 
  • Integrating data and metadata 
  • Methods for normalization and visualization 
  • Modeling biological systems  

Learning outcome

  • The student has a general knowledge of the history of bioinformatics. 
  • The student understands the process of genome assembly and its limitations.  
  • The student can use available tools for genome assembly. 
  • The student understands the process of functional annotation and its limitations.  
  • The student can use available tools for functional annotation. 
  • The student is familiar with the main bioinformatics databases. 
  • The student can discover gene and protein functions from their sequences. 
  • The student has a general knowledge of high-throughput technologies. 
  • The student can explain the difference between different omics. 
  • The student understands the concept of data and metadata. 
  • The student can programmatically read and transform tabular datasets. 
  • The student can use available tools for data visualization. 
  • The student can explain what a model is, and what its limitations are. 
  • The student can load a model and run simulations with suitable software. 
  • The student can interpret simulation results and their biological meaning. 

Learning methods and activities

The course will consist of: 

  • Lectures: 3 h/week (theory and active discussion) 
  • Computer lab: 3 h/week (programming exercises) 
  • Projects and self-study: approx. 6 h/week  

Further on evaluation

The evaluation will consist of 2 components: 

  • Two group projects (2-3 people): Part I (25%) + Part II (25%)  
  • Final written exam: 50% of final grade 

Course materials

Will be given at the start of the course.

More on the course

No

Facts

Version: 1
Credits:  7.5 SP
Study level: Intermediate course, level II

Coursework

Term no.: 1
Teaching semester:  SPRING 2022

Language of instruction: English

Location: Trondheim

Subject area(s)
  • Biotechnology
Contact information
Course coordinator:

Department with academic responsibility
Department of Biotechnology and Food Science

Examination

Examination arrangement: Portfolio assessment

Term Status code Evaluation Weighting Examination aids Date Time Examination system Room *
Spring ORD School exam 50/100 D 2022-05-10 15:00 INSPERA
Room Building Number of candidates
Spring ORD Group project I 25/100
Room Building Number of candidates
Spring ORD Group project II 25/100
Room Building Number of candidates
  • * The location (room) for a written examination is published 3 days before examination date. If more than one room is listed, you will find your room at Studentweb.
Examination

For more information regarding registration for examination and examination procedures, see "Innsida - Exams"

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