C9088 RNAseq analysis

Faculty of Science
Spring 2021
Extent and Intensity
1/1/0. 2 credit(s) (plus extra credits for completion). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).
Teacher(s)
Charlotte Sonenson, Ph.D. (lecturer)
doc. RNDr. Radka Svobodová, Ph.D. (lecturer)
Mgr. Eva Budinská, Ph.D. (lecturer)
Guaranteed by
doc. RNDr. Radka Svobodová, Ph.D.
National Centre for Biomolecular Research - Faculty of Science
Supplier department: National Centre for Biomolecular Research - Faculty of Science
Course Enrolment Limitations
The course is offered to students of any study field.
The capacity limit for the course is 20 student(s).
Current registration and enrolment status: enrolled: 0/20, only registered: 0/20, only registered with preference (fields directly associated with the programme): 0/20
Course objectives
The course is focused on obtaining of practical knowledge in a field of RNAseq analysis.
Basic idea of the subject is to focus on individual steps of RNAseq analysis. In each step, its realization is described, relevant software tools are showed and applied on selected examples.

At the end of the course, the student will be able to:
Work with methods and software tool for RNAseq analysis.
Perform the whole process of RNAseq analysis.
Interpret and discuss outputs of individual steps.
Learning outcomes
After finishing of the course, a student will be able to describe methods for realization of individual steps during RNAseq analysis. The student will be also able to use software tools, implementing the methods. Last but not least, the student can describe and perform complete workflow for RNAseq analysis.
Syllabus
  • During this course, we will go through the different steps of an RNA-seq experiment, including quality control, alignment of reads to a reference sequence, quantification of the expression of features, differential expression analysis and downstream analysis. We will discuss pitfalls, advantages and disadvantages of different approaches, and the participants will apply the methods.
Literature
  • HANÁKOVÁ, Barbora, Jan OPPELT and Eva BUDINSKÁ. Identification of subtype specific microbiome from tumour tissue RNAseq data in colorectal cancer. In 15th European Conference on Computational Biology. 2016. URL info
Teaching methods
lectures with practical demonstrations
Assessment methods
Written examination
Language of instruction
Czech
Further Comments
The course is taught: in blocks.
The course is also listed under the following terms Spring 2014, Autumn 2014, Spring 2020, Spring 2022.
  • Enrolment Statistics (Spring 2021, recent)
  • Permalink: https://is.muni.cz/course/sci/spring2021/C9088