BIN310 Selected Topics in Genome Analysis
Showing course contents for the educational year 2019 - 2020 .
Course responsible: Lars Gustav Snipen
ECTS credits: 10
Faculty: Faculty of Chemistry, Biotechnology and Food Science
Teaching language: EN, NO
Limits of class size:
Teaching exam periods:
This course starts in autumn parallel. This course has teaching/evaluation in autumn parallel.
Course frequency: Odd years
First time: Study year 2006-2007
Modern sequencing technology, shotgun and amplicon sequencing. Assembly and annotations of genomes and metagenomes. Simulation of sequencing data, both Illumina and Nanopore. Analyses of data from microbial communities (readcount-tables).
KNOWLEDGE: The ideas behind commonly used algorithms for processing and analysis of sequence data. Get to know a UNIX computing cluster and simple shell scripting. Know some common statistical methods for metagenome-studies and apply these on real data using R and R-packages.
SKILLS: Be able to apply elements from the topics above to solve a project assignment in the course. Making simple shell-scripts and R-scripts and run heavier analyses on a UNIX computing cluster. Present material both orally and in a written report.
GENERAL COMPETENCE: Be able to make use of, and understand, the computational pipelines of the future. Practical programming competence, directed toward analysis og bio-data.
Two lectures weekly. Two to four hours supervised solving of problems in the computer lab weekly. These classes can to some degree be used for ad-hoc lectures on topics of special interest, if requested by the students. Oral presentation of written report.
Active use of Canvas.
Will be specified at the beginning of the course.
Introduction to bioinformatics equivalent to BIN210. Statistics equivalent to STAT100.
Programming and statistics beyond the introductory level.
A written report on a topic announced at the start of the course. Oral presentation of the report.
Written exam, 3.5 hrs, counts 100%
Lectures: 26 hours. Exercises with instructor present: 44 hours. Individual study: 230 hours.
Special requirements in Science
Type of course:
Lectures: 2 hours per week. Computer lab exercises: 4 hours per week.
Students must bring their own laptop to computer-labs.
The exam will be approved by an external examiner. 25 selected exam papers will be evaluated by the external examiner.
Allowed examination aids: A1 No calculator, no other aids
Examination details: Written exam: Passed / Failed