Scientific topics: Toxicology or Bioinformatics
This section provides a step-by-step by tutorial on how to develop Building Blocks using the permedcoe package and an application that uses them.
Scientific topics: Personalised medicine, Workflows, Bioinformatics
Keywords: HPC, building blocks
Resource type: Tutorial
Partager et diffuser les données. Le cadre juridique, les entrepôts et les licences sur les données
Scientific topics: Data management, Biology, Bioinformatics
Keywords: data sharing, Data publishing, legal framework, data warehouse, licensing, data reuse
Resource type: Slides
Les Métadonnées : les standards du domaine des données omiques en biologie et séances pratiques d’annotations de jeux de données
Scientific topics: Data management, Biology, Bioinformatics
Operations: Data handling
Keywords: metadata, data annotation, life science standards, data sharing
Resource type: Slides
La vie des données pendant le projet : Principe et outils pour organiser, nommer, versionner, stocker, archiver, mes données
Scientific topics: Bioinformatics, Biology, Data management
Operations: Data handling
Keywords: Data preserving, Data storage
Resource type: Slides
This training is meant specifically for the “Galaxy @Sciensano” that is available at https://galaxy.sciensano.be/ and serves two purposes. First, it serves as an introduction in how to handle and employ the Galaxy instance hosted by Sciensano. Secondly, is also serves as a tutorial into both the...
Scientific topics: Microbiology, Sequencing, Genomics, Public health and epidemiology, Bioinformatics
Resource type: Video, Tutorial
Datanator is an integrated database of genomic and biochemical data designed to help investigators find data about specific molecules and reactions in specific organisms and specific environments for meta-analyses and mechanistic models. Datanator currently includes metabolite concentrations, RNA...
Scientific topics: Omics, Bioinformatics, Systems biology, Cell biology, Molecular biology
Operations: Filtering, Query and retrieval
Keywords: genomics, Proteomics, transcriptomics, Metabolomics, reaction kinetics, Kinetic modeling, meta analysis
Resource type: Tutorial
bio.tools provides essential scientific and technical information about software tools, databases and services for bioinformatics and the life sciences.
Some notable bio.tools documentation links:
- About bio.tools
- [Installing bio.tools on your...
Scientific topics: Ontology and terminology, Computational biology, Data submission, annotation, and curation, Bioinformatics
Operations: Data retrieval
Keywords: Tools, Curation, Software, Sofware curation, Tool curation
Resource type: Documentation, API reference
Workshop of 1.5h where the eNanoMapper ontology and a few uses are discussed. The exercises walk the audience trough the principles, uses, and demonstrates how they can actively work with the ontology.
Scientific topics: Ontology and terminology, Toxicology
Resource type: Tutorial
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: Biology, Bioinformatics, Computer science
Keywords: High performance computing, high-performance computing
Resource type: Tutorial, Slideshow, e-learning
We propose here a working unit for teaching basic concepts of structural bioinformatics and evolution through the example of a wooden snake puzzle, strikingly similar to toy models widely used in the literature of protein folding. In our experience, developed at a Master’s course at the...
Scientific topics: Protein structure analysis, Molecular biology, Evolutionary biology, Bioinformatics
Resource type: course materials
El libro está dividido en seis grandes bloques, que a su vez han sido organizados en dos Volúmenes. El primer volumen trata sobre cuestiones generales, de utilidad independientemente del área de bioinformática en que se pueda estar interesado, como bases de datos o fundamentos de programación....
Scientific topics: Systems biology, Bioinformatics
Keywords: introduction to bioinformatics, structural biology, biomolecular databases, Systems biology, phylogenetics, Programming, Sequence Analysis, DNA RNA, Virtual Screening, molecular evolution, molecular dynamics, Molecular docking, normal modes analysis, Proteins, protein folding, protein structure alignment, chromatin structure, intrinsically disordered proteins, data minning, R-programming, parallel computing, bibliography management
Resource type: Book
This tutorial describes how nanomaterial data can be added to an eNanoMapper server using a RDF format.
Scientific topics: Database management, Toxicology
Keywords: nanotoxicology, enanomapper, resource description framework, ontology
Resource type: Tutorial
If you work in the life sciences, you may find that you’re spending less time doing experiments and more time analysing huge amounts of biological data. Train online is here to help you do this quickly and efficiently.
Scientific topics: Bioinformatics
Keywords: Bioinformatics, Chemical biology, Cross domain, Dna rna, Gene expression, Literature, Ontologies, Proteins, Structures, Systems
Hands-on exercises using the STRING, STITCH, and DISEASES databases through their respective web interfaces. The exercises will teach you how to:
- retrieve a STRING network for a protein of interest *...
Scientific topics: Protein interactions, Molecular interactions, pathways and networks, Bioinformatics
Hands-on exercises using the stringApp for Cytoscape to retrieve molecular networks from the STRING and STITCH databases.
The exercises will teach you how to:
- retrieve...
Scientific topics: Data visualisation, Proteomics, Protein interactions, Molecular interactions, pathways and networks, Bioinformatics
Five PowerPoint presentations and an Excel worksheet for a Train the Trainer course developed by Chris Taylor while at the Earlham Institute working for the National Institutes of Science's Bioinformatics and Biomathematics Training hub. The five slide decks cover pedagogical theory, trainer...
Scientific topics: Bioinformatics, Computational biology
Keywords: training, pedagogy
Overview
Galaxy is an open, web-based platform for data intensive biomedical research. It offers an accessible, reproducible and transparent computational workbench for the biologist. This workbench is very useful in automating repeated analysis steps in the form of workflows. The...
Scientific topics: Workflows, High-throughput sequencing, Nucleic acid sequence analysis, Bioinformatics
Keywords: John Innes Centre, JIC
This material is a guideline for any bioinformatics group that would like to manage and distribute a cloud environment of virtual machines (VMs) for their users using only free components, if reasonable powerful compute and storage hardware is available. It is also a record of the creation of our...
Scientific topics: Bioinformatics
Keywords: Cloud computing, Virtual machine
This repository includes training materials on the analysis of high-throughput sequencing (HTS) data, on the following topics: Introduction to HTS, RNA-seq, ChIP-seq and variant calling analysis.
Materials have been annotated following the standards and guidelines proposed at the “Best practices...
Scientific topics: Data architecture, analysis and design, Bioinformatics
Keywords: High throughput sequencing analysis, Rna seq chip seq anayses, Variant calling
This course material introduces the central concepts, analysis steps and file formats in RNA-seq data analysis. It covers the analysis from quality control to differential expression detection, and workflow construction and several data visualizations are also practised. The material consists of...
Scientific topics: Sequencing, RNA, Data architecture, analysis and design, Bioinformatics
Keywords: Bioinformatics, Differential expression, Ngs, Rna seq
Hands on course held at TGAC (http://www.tgac.ac.uk/) on Monday 19 to Friday 23 May 2014
What is this workshop about?
The course will combine lectures and led discussions to identify key challenges, opportunities and bottlenecks, with practical session on:
Automated and standardized data...
Scientific topics: Sequence analysis, Plant biology, Database management, Bioinformatics
Keywords: Ngs, Ngs bioinformatics, Plants bioinformatics
Online Gaming in Bioinformatics: The ‘Fun’ Model to Online Bioinformatics Education
Benjamin Good, Senior Staff Scientist, Department of Molecular and Experimental Medicine, The Scripps Research Institute.
Dr. Good’s research focuses on games with a purpose in crowdsourcing biological knowledge....
Scientific topics: Bioinformatics
Keywords: Bioinformatics, Gaming, Online learning
This is a module from the "Python for Biologists" course. It deals with functions and how to write and use them. It also introduces namespaces and the tuple data structure. The module contains several exercises and suggested solutions. The text of exercises is also provided in a separate file.
Scientific topics: Bioinformatics
Keywords: Programming, Python, Python biologists