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PVS0141

Introduction to bioinformatics

The course aims to give the student a solid foundation in the basic methods of bioinformatics. It will cover the theories, algorithms and practical applications of computer-based methods for analysis of DNA sequences and protein structures. The topics to be covered include:



  • biological databases



  • homology analysis



  • sequence analysis (with emphasis on the package EMBOSS and UGENE)



  • statistics and R introduction



  • web-based tools for analysis



  • the Unix operating system



  • phylogeny



  • comparative genomics



  • functional genomics



  • Next Generation Sequencing (NGS)




The course is mainly based on lectures, interactive computer exercises and web-based tutorials.


Syllabus and other information


Syllabus

PVS0141 Introduction to bioinformatics, 10.0 Credits

Subjects

Bioinformatics

Education cycle

Postgraduate level

Grading scale

Pass / Failed

Language

English

Prior knowledge

Admitted to a postgraduate program in animal science, biology, veterinary medicine, food science, nutrition, nursing, bioinformatics or similar subjects, or to a residency program in veterinary science. Some knowledge in biology or cell biology/molecular genetics.

Objectives

After completion of the course, the student should be able to:

  • understand and describe the basic principles of bioinformatics

  • independently carry out comparisons of protein and DNA sequences, and to interpret the results

  • work within Unix/Linux operating systems

  • build a bioinformatics "workbench" with publicly-available programs that are suited to his/her own needs

  • use biological databases

  • describe the statistical methods on which bioinformatics is based

  • perform bioinformatics analysis and critically evaluate, validate and judge the results

Content

The course aims to give the student a solid foundation in the basic methods of bioinformatics. It will cover the theories, algorithms and practical applications of computer-based methods for analysis of DNA sequences and protein structures. The topics to be covered include:

  • biological databases

  • homology analysis

  • sequence analysis (with emphasis on the package EMBOSS and UGENE)

  • statistics and R introduction

  • web-based tools for analysis

  • the Unix operating system

  • phylogeny

  • comparative genomics

  • functional genomics

  • Next Generation Sequencing (NGS)

The course is mainly based on lectures, interactive computer exercises and web-based tutorials.

Formats and requirements for examination

Written exam and web-based tasks.

Additional information

The participants must bring own computers. The course will take place in the SLU campus Ultuna in Uppsala. Course application: by e-mail to course coordinator. The course is given jointly with the advanced course SLU-30254 Bioinformatics 15.0 HEC, and is part of the GS-VMAS Research School at SLU.



For application: https://www.slu.se/gs-vmas-courses

Responsible department

Department of Animal Breeding and Genetics

Course facts

Subject: Bioinformatics
Course code: PVS0141 Application deadline: Location: Uppsala Distance course: No Language: English Responsible department: Department of Animal Breeding and Genetics Pace: 70%