Introduction to genome-wide association studies (GWAS) 2019
18 September 2019
Kiel, GermanyIntroduction to genome-wide association studies (GWAS) 2019 https://www.denbi.de/training/611-introduction-to-genome-wide-association-studies-gwas-2019 https://tess.elixir-europe.org/events/introduction-to-genome-wide-association-studies-gwas-2019 Educators: David Ellinghaus (Associated partner - CAU) Date: September 18, 2019 Time: 08:30 - 16:30 Location: Kiel, Am Botanischen Garten 1-9, Room E49 This course is designed for 15 participants. If we receive (a lot) more applications, we will choose participants based on the relevance of their application and/or a first-come-first-serve basis. Contents: Over the past decade, genetic epidemiology studies have progressed from studying single genetic variants in candidate genes to investigating millions of common genetic variants in genome-wide association studies (GWAS). Nowadays GWAS studies are moving forward to genome-wide rare variant association studies, gene-gene (GxG) and gene-environment (GxE) interaction studies as well as cross-phenotype studies including several 10k and sometimes even >100k genetic samples. Learning goals: In this one day course we will give guidance for planning of SNP array genotyping and will provide best-practices for large-scale quality control, variant annotation and association analysis of GWAS data. In the practical part of the course will work on real-world data sets and show how to automatically and manually analyze large case-control sample sets and how to annotate phenotype-associated genomic regions. Prerequisites: None Keywords: genome-wide association studies (GWAS); SNP genotype quality control; association testing 2019-09-18 08:00:00 UTC 2019-09-18 17:00:00 UTC de.NBI Kiel, Kiel, Germany Kiel Kiel Germany    workshops_and_courses  
Eukaryote genome annotation workshop 2019
19 September 2019
Kiel, GermanyEukaryote genome annotation workshop 2019 https://www.denbi.de/training/610-eukaryote-genome-annotation-workshop-2019 https://tess.elixir-europe.org/events/eukaryote-genome-annotation-workshop-2019 Educators: Marc Höppner (Associated partner - CAU) Date: September 19, 2019 - 08:30 - 16:30 Location: Kiel, Am Botanischen Garten 1-9, Room E49 Contents: The constant drop in sequencing prices and the development of easy-to-use assembly programs makes it possible, even for small groups, to embark on a de novo genome project to obtain the full sequence of their species of interest. However, automatically annotating all genetic features in a eukaryotic genome, especially in non-model species with few or no sequenced closely related species, remains a challenge and standard pipelines still do not exist. Learning goals: In this one day course participants will learn about these challenges and the current strategies that can be used to try to obtain the most complete set of genes from a de novo assembled eukaryotic genome. We will also discuss how additional data, such as RNA-seq, assembled transcriptomes or proteomic data, can be used to improve the annotation, which can inform decisions on how best to spend the budget during a genome project. The practical part of the course will explain how to automatically and manually annotate a genomic region and how that information can be immediately translated into biologically relevant data for the species of interest. Prerequisites: None Keywords: eukaryotic genome, annotation, RNAseq proteomic data, assembly Contact: Marc Höppner, email@example.com This course is designed for 15 participants. If we receive (a lot) more applications, we will choose participants based on the relevance of their application and/or a first-come-first-serve basis. 2019-09-19 09:00:00 UTC 2019-09-19 17:00:00 UTC de.NBI Kiel, Kiel, Germany Kiel Kiel Germany    workshops_and_courses  
Phylogenetic reconstruction course 2020
20 May 2020
Kiel, GermanyPhylogenetic reconstruction course 2020 https://www.denbi.de/training/738-phylogenetic-reconstruction-course-2020 https://tess.elixir-europe.org/events/phylogenetic-reconstruction-course-2020 Educators: Tal Dagan (CAU) Date: 20.05.2019, 08:15 - 16:00 Location: Kiel Contents/Learning goals: The evolutionary history of genes or species is best studied and described by phylogenetic trees. The accumulating sequence data enable the reconstruction of phylogenetic trees for many diverse gene and species. A robust phylogeny is helpful in identifying phyletic groups as well as ancestral relations in the data and lateral gene transfer. Notwithstanding phylogenetic reconstruction is sensitive to various biases in the analysis that originate in alignment and phylogenetic reconstruction artifacts. Students in the workshop will learn to reconstruct multiple sequence alignment and phylogenetic trees of focal sequences. This includes a quantification of possible biases in the phylogenetic reconstruction and ways to counteract their influence on the results. In addition, the students will learn how to identify the root of phylogenetic trees and extract ancestral-descendent relations. The workshop is intended to address scientists from undergraduate to postdoc level and does not expect previous experience in phylogenetics. Basic knowledge on how to work with Linux will be advantageous. Prerequisites: None Keywords: Tree phylogeny, gene homology, rooting, robustness Tools: MAFFT, Guidance, PhyML, IQTree, MAD rooting, FigTree. 2020-05-20 09:00:00 UTC 2020-05-20 17:00:00 UTC de.NBI Kiel, Kiel, Germany Kiel Kiel Germany    workshops_and_courses  
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