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The seminar contains three components:
(1) Basics, performed individually. Reading of the review A field guide to whole-genome sequencing, assembly and annotation, Ekblom et al., 2014.https://doi.org/10.1111/eva.12178 and answering of the accompanying general questions about genome sequencing, assembly and gene prediction. Some of the questions require a little extra information outside of the indicated review, which can be obtained by searching the internet (e.g. through Google).
(2) Specification, performed group wise. Students will groupwise study a selected set of sequencing, assembly or annotation methods, using per-group indicated reviews, websites and technical manuals. Students should be able to explain the key features of their set of techniques or methods and prepare a small presentation. Questions are provided for guidance on each group topic in addition to the suggested reviews, websites and manuals. Including the answers to these questions in the presentation will help to identify the key features.
(3) Exchange, performed classically. Each group will present their group topic to the other students. Each presentation will be followed by questions from the other students, about details or unclarity on the presented techniques or methods or their possible uses. A good understanding of the different topics by all students will be needed to solve the presented casus. The casus is aimed at a sequence project in plants. Strengths and weaknesses of different methods and techniques will be compared and discussed during the casus.
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