Universität Wien FIND
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300025 SE Computational methods in microbial ecology (2020S)

3.00 ECTS (2.00 SWS), SPL 30 - Biologie
Continuous assessment of course work

Registration/Deregistration

Details

max. 25 participants
Language: English

Lecturers

Classes (iCal) - next class is marked with N

Wednesday 11.03. 13:00 - 16:00 Übungsraum 6, UZA I, Biozentrum Althanstraße 14, 2.208 1.OG
Wednesday 18.03. 13:00 - 16:00 Übungsraum 6, UZA I, Biozentrum Althanstraße 14, 2.208 1.OG
Wednesday 25.03. 13:00 - 16:00 Übungsraum 6, UZA I, Biozentrum Althanstraße 14, 2.208 1.OG
Wednesday 01.04. 13:00 - 16:00 Übungsraum 6, UZA I, Biozentrum Althanstraße 14, 2.208 1.OG
Wednesday 22.04. 13:00 - 16:00 Übungsraum 6, UZA I, Biozentrum Althanstraße 14, 2.208 1.OG
Wednesday 29.04. 13:00 - 16:00 Übungsraum 6, UZA I, Biozentrum Althanstraße 14, 2.208 1.OG
Wednesday 06.05. 13:00 - 16:00 Übungsraum 6, UZA I, Biozentrum Althanstraße 14, 2.208 1.OG
Wednesday 13.05. 13:00 - 16:00 Übungsraum 6, UZA I, Biozentrum Althanstraße 14, 2.208 1.OG

Information

Aims, contents and method of the course

- Mathematical concepts in microbial ecology
- Statistics of high-dimensional data
- Estimating diversity and composition of microbial communities
- Databases and resources in microbial ecology
- DNA sequencing in microbial ecology (amplicon sequencing, shotgun metagenomics, metatranscriptomics)
- Computational pipelines for amplicon sequencing: overview, features, evaluation
- Comparison of microbial communities
- Networks in ecology: correlation vs. interaction

Assessment and permitted materials

Regular quizzes and homework assignments. Homeworks contribute 75% to the final grade and quizzes contribute 25%. Participants should bring a laptop for in-class exercises. A passing grade is >50% of combined assessments.

Minimum requirements and assessment criteria

Minimum requirements: No computer programming knowledge required.

Assessment criteria:
Understanding relevant mathematical and computational methods in microbial ecology. Applying these methods to typical problems in microbial ecology and designing experiments. Performing mathematical and computational experiments using typical software programs. Presenting and interpreting the results of mathematical and computational experiments. Understanding and discussing recent scientific literature.

Examination topics

This course will consist of theoretical lectures, discussion of selected scientific papers and practical exercises (mainly using the computers of the participants).

Reading list

Will be provided throughout the course on the e-learning platform.

Association in the course directory

MMEI II-2.2, MMB W-2, MMB W-3,

Last modified: Tu 28.01.2020 07:48