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Bioinformatics

Online workshop: Strategies for training and knowledge exchange with a consulting perspective

Join this workshop if you are interested in:

  • learning evidence-based best practices for teaching
  • how to create a positive environment for learners at your workshops
  • how to provide opportunities for you to practise and improve your teaching skills.
  • how to survey people’s training needs
  • learning how to get the most out of any consulting possibilities you offer
  • how to effectively manage tasks and projects
  • how to initiate new projects and how to prioritise
  • learning how to balance consultancy, training, and IT tasks

Registration deadline: June 7, 2024

Date: June 25, 2024 - June 26, 2024, From 09:00 to 16:00 (CEST)

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Webinar by EMBL-EBI: Bioinformatic approaches to understand the role of the human microbiome in health and disease

This webinar will provide an overview of current metagenomic approaches to study the human microbiome and introduce several statistical methods that can be used to link its composition and function to different human phenotypes and populations. This webinar is suitable for those interested in studying the microbiomes of any environment or host. Although the presentation will be focused on the human microbiome, the methods and techniques discussed will also be applicable to other microbial ecosystems. No prior knowledge of bioinformatics is required, but undergraduate level knowledge of biology would be useful.

Date & Time: Mar 6, 2024 05:30 PM

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Online course - NGS - Quality Control, Alignment, Visualisation

In this module, we will introduce the most used sequencing technologies and explain their concepts. Using different datasets, we will practice quality control, alignment of reads to a reference genome and visualize the output. This course is intended for life scientists who are already dealing with NGS data and would like to be able to start analysing them.

Application deadline: 01 April 2024

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Nextflow for beginners - 3-day course (19.04; 26.04; 3.05), Tartu - Course is full

This 3-day Nextflow course by ELIXIR Estonia, in collaboration with the University of Tartu HPC Center, comprehensively introduces the powerful workflow language. Nextflow is renowned for its robust, scalable, and reproducible methods of running computational pipelines. Through efficient, interactive lessons, participants will gain a solid understanding of Nextflow technology, from fundamental to advanced concepts.

Online course: Enrichment Analysis

Experiments designed to quantify gene expression often yield hundreds of genes that show statistically significant differences between groups of interest. Once differentially expressed genes are identified, enrichment analysis (EA) methods can be used to explore the biological functions associated with these genes. EA methods allow us to identify groups of genes (e.g. particular pathways) that are over-represented, thereby offering insights into biological mechanisms. One of the EA methods frequently used for high-throughput gene expression data analysis is Gene Set Enrichment Analysis (GSEA). This course will cover GSEA and alternative enrichment methods. Because the implementation of GSEA is directly linked to databases that annotate the function of genes in a cell, the course will also give an overview of functional annotation databases such as Gene Ontology.

Application deadline: 26 February 2024

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Course at Bern, Switzerland: NGS - Genome Variant Analysis

The detection of genetic variation is of major interest in various disciplines spanning from ecology and evolution research to inherited disease discovery and precision oncology. Next generation sequencing (NGS) methods are very powerful for the detection of genomic variants. Thanks to its throughput and cost-efficiency it enables the detection of a large number of variants in a large number of samples. In this two-day course we will cover the steps from read alignment to variant calling and annotation. We will mainly focus on the detection of germline mutations by following the GATK best practices.

Application deadline: 15 February 2024

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Course at Breda, The Netherlands: RNA-seq data analysis

The 9th edition of the RNA-seq Data Analysis course will be held on 8-12 April – 2024 in Breda, The Netherlands. This course covers the basic concepts and methods required for RNA-seq analysis. Particular attention is given to the data analysis pipelines for differential transcript expression and variant calling. The course consists of a mixture of lectures and Galaxy, Linux and R practicals. Also the potential of long-read based RNA-seq and AI based analysis enrichments will be explored.

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Course at Bern, Switzerland: Single-Cell Transcriptomics with R

Single-cell RNA sequencing (scRNAseq) allows researchers to study gene expression at the single cell level. For example, scRNAseq can help to identify expression patterns that differ between conditions within a cell-type. To generate and analyze scRNAseq data, several methods are available, all with their strengths and weaknesses depending on the researchers’ needs. This 3-day course will cover the main technologies as well as the main aspects to consider while designing a scRNAseq experiment. In addition, it will cover the theoretical background of analysis methods with hands-on practical data analysis sessions applied to droplet-based methods.

Application deadline: 06 March 2024

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