SIB Swiss Institute of Bioinformatics

The SIB Swiss Institute of Bioinformatics is an academic, non-profit foundation recognised of public utility and established in 1998. SIB coordinates research and education in bioinformatics throughout Switzerland and provides high quality bioinformatics services to the national and international research community.

SIB Swiss Institute of Bioinformatics http://tess.elixir-uk.org/content_providers/swiss-institute-of-bioinformatics The SIB Swiss Institute of Bioinformatics is an academic, non-profit foundation recognised of public utility and established in 1998. SIB coordinates research and education in bioinformatics throughout Switzerland and provides high quality bioinformatics services to the national and international research community. /system/content_providers/images/000/000/011/original/sib_logo_medium.jpg?1662299701
Showing 19 materials.
How to use Python and R with RDF Data

How to use Python and R with RDF Data is a training that was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and is part of a series of trainings centred around the [SPHN Interoperability...

Scientific topics: Computer science, Data management, FAIR data, Medical informatics

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, Python, R, GraphDB

Resource type: Video, Training materials, Mock data, E-learning

How to use V-pipe (SARS-CoV-2 data)

This tutorial demonstrate how to use V-pipe - Bioinformatics pipeline for the analysis of next-generation sequencing data derived from intra-host viral populations.

For the purpose of this toturial, we use the sars-cov2 branch of V-pipe and analyse SARS-CoV-2 runs downloaded from NCBI SRA.

Scientific topics: Virology, Genetic variation, Workflows

Keywords: coronavirus, NGS bioinformatics, Variant-calling

Resource type: Computer Software, workflow

Using bioinformatics to hunt SARS-CoV-2, its variants & its origins – a practical guide

This Practical Guide outlines basic bioinformatics approaches for exploring the SARS-CoV-2 genome and its corresponding proteins, focusing on the protein exposed on the viral particle surface: the spike protein. The ways in which bioinformatics can be harnessed to study a new virus, its genome,...

Keywords: Bioinformatics for schools, basic bioinformatics, SARS-CoV-2 pandemic, genome analysis, protein sequence analysis, protein structure analysis, virus variants, spike protein, training material

Resource type: Training materials

BLAST and multiple sequence alignment (MSA) programs

Background
The rapid identification of pathogens infecting livestock is essential to appropriately respond to the threat. The number and the variety of pathogen sequenced genomes have been growing more dramatically these recent years, because of the new sequencing technologies. This wealth of...

Keywords: Blast, E learning, Multiple sequence alignment

Resource type: e-learning

BLAST and multiple sequence alignment (MSA) programs

Background
The rapid identification of pathogens infecting livestock is essential to appropriately respond to the threat. The number and the variety of pathogen sequenced genomes have been growing more dramatically these recent years, because of the new sequencing technologies. This wealth of...

Keywords: Blast, E learning, Multiple sequence alignment

UNIX Fundamentals

This self-learning tutorial aims to present the UNIX environment and to provide the most basic commands to users with no or very little UNIX knowledge.
The examples are taken from various Biological fields but have been chosen carefully to be easily accessible to a wide audience.
At the end of...

Keywords: Problem based learning, Programming, Unix

Resource type: e-learning

High Performance Computing (HPC) in Life Sciences

High-throughput sequencing data analysis requires new technical competencies and HPC is one of them. SIB has developed an e-learning module in HPC, as part of the ELIXIR-EXCELERATE project. e-learning has the potential to reach a wider audience, in any location and any time, and can be used...

Scientific topics: Computer science, Bioinformatics, Biology

Keywords: High performance computing, high-performance computing

Resource type: Tutorial, Slideshow, e-learning

Phylogenetics of animal viral pathogens

Background
The vast diversity of the pathogens affecting livestock demands a very specific diagnostic procedure in identification and characterization of each pathogen. In this context, the enormous amount of sequence and genotype data is being generated on animal pathogens, which is further...

Keywords: Animal pathogens, E learning, Phylogenetics

Resource type: e-learning

Vital-IT Infrastructure Usage

How to efficiently use Vital-IT hardware and software infrastructure.

Introduction to 3D-Structure Visualization and Homology Modeling using the Swiss-Model Workspace

The goal of this course is to expose the participants to 3-dimensional structures of proteins. Analysis and visualization software (DeepView) will be used to display, analyze, compare and interpret protein structures. The second part of the course is dedicated to protein structure prediction...

Phylogenetics of animal viral pathogens

Background
The vast diversity of the pathogens affecting livestock demands a very specific diagnostic procedure in identification and characterization of each pathogen. In this context, the enormous amount of sequence and genotype data is being generated on animal pathogens, which is further...

Keywords: Animal pathogens, E learning, Phylogenetics

Resource type: ViralZone

FAIR principles in practice for health data

FAIR principles in practice for health data was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and is part of a series of trainings centered around the [SPHN Interoperability...

Scientific topics: Computer science, Data management, FAIR data, Medical informatics

Keywords: Clinical data, RDF, Knowledge graph, Semantic framework, FAIR, Findability, Accessibility, Interoperability, Reusability

Resource type: Video, E-learning

RDF Schema and Data Visualization

RDF Schema and Data Visualization is a training that was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and is part of a series of trainings centered around the [SPHN Interoperability...

Scientific topics: Data visualisation, Medical informatics, FAIR data, Data management, Computer science

Keywords: Clinical data, SPARQL, Data visualization, RDF, Knowledge graph, GraphDB, Mock data

Resource type: Video, Training materials, Mock data, E-learning

Validate Graph Data with SHACL

Validate Graph Data with SHACL is a training that was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and is part of a series of trainings centered around the [SPHN Interoperability...

Scientific topics: Medical informatics, FAIR data, Data management, Computer science

Keywords: Clinical data, SHACL, Data validation, RDF, Knowledge graph, GraphDB, RDF, RDF graph validation

Resource type: Video, Training materials, E-learning

Semantic Standards

This video was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and serves as an introduction to the main standards used within the [SPHN Interoperability...

Scientific topics: Computer science, Data management, FAIR data, Medical informatics, Ontology and terminology

Keywords: Clinical data, Data semantics, FAIR, Standards, Ontology, SNOMED CT, LOINC, ATC, CHOP, ICD, Interoperability

Resource type: Video, Training materials, E-learning

Expanding the SPHN RDF Schema

Expanding the SPHN RDF Schema is a training that was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and is part of a series of trainings centered around the [SPHN Interoperability...

Scientific topics: Ontology and terminology, Medical informatics, FAIR data, Data management, Computer science

Keywords: Clinical data, Data semantics, FAIR, Ontology editing, Protegé, RDF, OWL

Resource type: Video, Training materials, E-learning

Training Primer (RDF and SPARQL)

The RDF and SPARQL training primer was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and is part of a series of trainings centered around the [SPHN Interoperability...

Scientific topics: Computer science, Data management, FAIR data, Medical informatics, Ontology and terminology

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, Triplestore, Ontology

Resource type: Video, Training materials, E-learning

Querying Data with SPARQL

Querying Data with SPARQL is a training that was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and is part of a series of trainings centered around the [SPHN Interoperability...

Scientific topics: Computer science, Data management, FAIR data, Medical informatics, Data mining

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, SNOMED CT, LOINC, Interoperability

Resource type: Video, Training materials with mock data, E-learning

How to create a concept for the SPHN Dataset

How to create a concept for the SPHN Dataset is a training that was developed in the context of the Swiss Personalized Health Network (SPHN) initiative and is part of a series of trainings centred around the SPHN Interoperability Framework developed by the SPHN Data...

Scientific topics: Computer science, Data management, FAIR data, Medical informatics

Keywords: Clinical data, Semantic Framework, FAIR, Concepts design, Ontology, Semantic inheritance, SNOMED CT, Conceptualization

Resource type: Video, E-Learning

Showing 30 upcoming events out of 39. Found 366 past events. View all results.
  • First Steps with Python in Life Sciences

    1 - 3 March 2023

    Lausanne, Switzerland

    ELIXIR node event
  • A guided tour through neXtProt

    23 February 2023

    Streamed, Switzerland

    ELIXIR node event
  • First Steps with UNIX in Life Sciences

    10 January 2023

    Lausanne, Switzerland

    ELIXIR node event
  • Version Control with Git

    22 - 24 February 2023

    Lausanne, Switzerland

    ELIXIR node event
  • Multiomics Data Analysis and Integration

    16 - 17 March 2023

    Geneva, Switzerland

    ELIXIR node event
  • Discover ViralZone

    18 January 2023

    Streamed, Switzerland

    ELIXIR node event
  • Galaxy Introduction for Life Scientists

    25 - 26 April 2023

    Bern, Switzerland

    ELIXIR node event
  • First Steps with R in Life Sciences

    2 - 3 February 2023

    Streamed, Switzerland

    ELIXIR node event
  • First Steps with R in Life Sciences

    8 - 9 June 2023

    Lausanne, Switzerland

    ELIXIR node event
  • Docker and Singularity for Reproducible Research: Getting Started with Containers

    13 October 2023

    Streamed, Switzerland

    ELIXIR node event
  • UNIX Shell Scripting in Life Sciences

    6 - 7 June 2023

    Lausanne, Switzerland

    ELIXIR node event
  • Best Practices in Programming

    5 - 6 July 2023

    Zürich, Switzerland

    ELIXIR node event
  • Data Visualisation with R

    20 - 21 March 2023

    Lausanne, Switzerland

    ELIXIR node event
  • Introduction to R Shiny

    27 April 2023

    Streamed, Switzerland

    ELIXIR node event
  • Submitting, Finding and Downloading Raw Sequencing Data with ENA

    12 June 2023

    Berne, Switzerland

    ELIXIR node event
  • Applied Statistics: Data Analysis in Practice

    4 - 5 April 2023

    Lausanne, Switzerland

    ELIXIR node event
  • First Steps with UNIX in Life Sciences

    24 August 2023

    Lausanne, Switzerland

    ELIXIR node event
  • First Steps in Parallelization with OpenMP

    9 May 2023

    Streamed, Switzerland

    ELIXIR node event
  • Gene Expression made Useful Easily: Tools and Database of Bgee

    26 May 2023

    Streamed, Switzerland

    ELIXIR node event
  • Introduction to openBIS

    27 June 2023

    Streamed, Switzerland

    ELIXIR node event
  • NGS - Quality Control, Alignment, Visualisation

    20 - 22 February 2023

    Bern, Switzerland

    ELIXIR node event
  • Single-cell Transcriptomics

    6 - 8 March 2023

    Streamed, Switzerland

    ELIXIR node event
  • Enrichment Analysis

    23 June 2023

    Streamed, Switzerland

    ELIXIR node event
  • Enrichment Analysis

    1 December 2023

    Streamed, Switzerland

    ELIXIR node event
  • Introduction to Statistics with R

    6 - 9 February 2023

    Lausanne, Switzerland

    ELIXIR node event
  • Research Data Management and Data Management Plan

    26 - 27 January 2023

    Lausanne, Switzerland

    ELIXIR node event
  • Single-cell Transcriptomics

    3 - 5 July 2023

    Bern, Switzerland

    ELIXIR node event
  • Enrichment Analysis

    24 March 2023

    Streamed, Switzerland

    ELIXIR node event
  • Docker and Singularity for Reproducible Research: Getting Started with Containers

    26 April 2023

    Streamed, Switzerland

    ELIXIR node event
  • Single-cell Transcriptomics

    13 - 15 November 2023

    Bern, Switzerland

    ELIXIR node event
  • NGS - Genome Variant Analysis

    15 - 16 May 2023

    Bern, Switzerland

    ELIXIR node event
  • Introduction to GPU Programming for Life Sciences

    14 February 2023

    Streamed, Switzerland

    ELIXIR node event
  • Comparative Genomics

    30 August - 1 September 2023

    Lausanne, Switzerland

    ELIXIR node event
  • Transcriptomics Analysis: RNA-seq

    8 - 10 May 2023

    Streamed, Switzerland

    ELIXIR node event
  • Long-read Sequence Analysis

    14 - 15 March 2023

    Bern, Switzerland

    ELIXIR node event
  • Introduction to Statistics with Python

    20 - 21 June 2023

    Basel, Switzerland

    ELIXIR node event
  • Introduction to RNA-Seq: From Quality Control to Pathway Analysis

    19 - 20 September 2023

    Basel, Switzerland

    ELIXIR node event
  • NGS - Genome Variant Analysis

    20 - 21 February 2023

    Bern, Switzerland

    ELIXIR node event
  • NGS - Quality Control, Alignment, Visualisation

    15 - 17 May 2023

    Bern, Switzerland

    ELIXIR node event