C9088 RNA & DNA sequence analysis

Faculty of Science
Spring 2023
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)
Mgr. Vojtěch Bystrý, Ph.D. (lecturer)
doc. RNDr. Radka Svobodová, 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
Timetable
Thu 14:00–14:50 C04/211, Thu 15:00–15:50 C04/211
Course Enrolment Limitations
The course is also offered to the students of the fields other than those the course is directly associated with.
The capacity limit for the course is 20 student(s).
Current registration and enrolment status: enrolled: 2/20, only registered: 0/20, only registered with preference (fields directly associated with the programme): 0/20
fields of study / plans the course is directly associated with
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. Online. In 15th European Conference on Computational Biology. 2016, [citováno 2024-04-24] URL info
Teaching methods
The course is taught as a combined form of online lectures with practical examples and block teaching for consultations (the date and time will be chosen based on arrangements with the students)
Assessment methods
Written exam
Language of instruction
Czech
Further Comments
Study Materials
The course is also listed under the following terms Spring 2014, Autumn 2014, Spring 2020, Spring 2021, Spring 2022, Spring 2024, Spring 2025.
  • Enrolment Statistics (Spring 2023, recent)
  • Permalink: https://is.muni.cz/course/sci/spring2023/C9088