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CB204V Single-cell and spatial transcriptomics data analysis 2.5 credits

Administer About course

The course focuses on bioinformatics aspects for single-cell and spatial transcriptomics analysis

Information per course offering

Choose semester and course offering to see current information and more about the course, such as course syllabus, study period, and application information.

Termin

Information for Autumn 2025 Start 27 Oct 2025 single courses students

Course location

AlbaNova

Duration
27 Oct 2025 - 12 Jan 2026
Periods
P2 (2.5 hp)
Pace of study

17%

Application code

10193

Form of study

Distance Daytime

Language of instruction

English

Course memo
Course memo is not published
Number of places

5 - 50

Target group
No information inserted
Planned modular schedule
[object Object]
Schedule
Schedule is not published
Part of programme
No information inserted

Contact

Examiner
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Course coordinator
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Teachers
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Course syllabus as PDF

Please note: all information from the Course syllabus is available on this page in an accessible format.

Course syllabus CB204V (Autumn 2024–)
Headings with content from the Course syllabus CB204V (Autumn 2024–) are denoted with an asterisk ( )

Content and learning outcomes

Course contents

The course consists of lectures and computer lab. The lectures focus on theoretical aspects of single-cell and spatial transcriptomic analysis. Computer lab focuses on practical aspects of both subjects. Specific content of the lectures:

  • reproducibility of data analysis
  • Single-cell analysis workflow
  • spatial transcriptomic analysis workflow

Intended learning outcomes

After passing the course, the student should be able to:

  • assess differences between a single-cell and spatial transcriptomic analysis
  • discuss the advantages and disadvantages of both types of analyzes
  • perform a general analysis workflow of single-cell and spatial transcriptomic data

Literature and preparations

Specific prerequisites

A total of 20 university credits (hp) in cell biology, biochemistry, microbiology, gene technology or molecular biology. 6 university credits (hp) in mathematics. English B/6.

Literature

You can find information about course literature either in the course memo for the course offering or in the course room in Canvas.

Examination and completion

If the course is discontinued, students may request to be examined during the following two academic years.

Grading scale

P, F

Examination

  • LAB1 - Working in R, 0.5 credits, grading scale: P, F
  • LAB2 - Single-cell analysis, 1.0 credits, grading scale: P, F
  • LAB3 - Spatial Transcriptomics analysis, 1.0 credits, grading scale: P, F

Based on recommendation from KTH’s coordinator for disabilities, the examiner will decide how to adapt an examination for students with documented disability.

The examiner may apply another examination format when re-examining individual students.

Examiner

Profile picture Stefania Giacomello

Profile picture Afshin Ahmadian

Ethical approach

  • All members of a group are responsible for the group's work.
  • In any assessment, every student shall honestly disclose any help received and sources used.
  • In an oral assessment, every student shall be able to present and answer questions about the entire assignment and solution.

Further information

Course room in Canvas

Registered students find further information about the implementation of the course in the course room in Canvas. A link to the course room can be found under the tab Studies in the Personal menu at the start of the course.

Offered by

CBH/Gene Technology

Main field of study

Biotechnology

Education cycle

Second cycle