Course catalogue doctoral education - VT20

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Title Basic Bioinformatics
Course number 3044
Programme 0-Inte del av forskarutbildningsprogram
Language English
Credits 2.0
Notes The course meets the requirements for a general science course.

Date 2020-05-04 -- 2020-05-12
Responsible KI department Institutionen för medicin, Solna
Specific entry requirements Basic knowledge in molecular biology from undergraduate level.
Purpose of the course This course aims to give the students who work mainly in wet lab, an opportunity to obtain a foundation in the principles of bioinformatics, so they can start to develop skills in bioinformatics. This is done by equipping and familiarising the students with several bioinformatic tools commonly used in molecular biology and genetics.
Intended learning outcomes By the end of the course the participants should be able to:
- use the command line interface (a text-based means of interacting with a computer),
- download datasets from omics databases
- know principles of python (a programming language) and be able to create graphs and perform cluster analysis
- know how to apply the basic principles for analyzing high-throughput sequencing and genotyping data.
- have the foundations to perform by themselves the taught data analysis techniques.
Contents of the course Bash command line interface, genome browsers, python including plotting and clustering methods, high-throughput sequencing and genotyping data: RNA-seq and GWAS.
Teaching and learning activities Each session of the course starts with an introductory interactive lecture, followed by hands-on computer exercises. Most of the course consists of hands-on exercises where the students can work in small groups (2 to 3) and interact with the teachers.
Compulsory elements The introductory lectures are compulsory since the course is designed to gradually increase in complexity. The practical sessions are also compulsory, unless stated they are not. Absence has to be compensated for in agreement with the course organizers. The examination is compulsory.
Examination The examination is in line with the intended learning outcomes and involves practical exercises of each of the sessions taught. The exercises are solved during the last day of the course. The process and solutions of the examination can be discussed in small groups (2 to 3) and with the teachers. The answers of the exam should be handed in to the teachers individually.
Literature and other teaching material Students should bring their own computer and be prepared to install the software required for the course. The admitted students will be contacted in advance by the course organizers
with instructions for the installation process. Specific literature for each of the topics will be distributed during the course.
Number of students 10 - 35
Selection of students Wet lab students without prior bioinformatics experience are given priority, and secondarily date for registration as a doctoral student (priority given to earlier registration date).
More information The course is held on different classrooms at Widerströmska Huset, Tomtebodavägen 18a, KI campus Solna.
Additional course leader
Latest course evaluation Course evaluation report
Course responsible Daniel Ramsköld
Institutionen för cell- och molekylärbiologi

daniel.ramskold@ki.se
Contact person Lina Diaz-Gallo
Institutionen för medicin, Solna
+46851770310
lina.diaz@ki.se

Karolinska University Hospital - CMM L8:05
Diaz-Gallo
171 76
Stockholm