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BioExcel Building Blocks (BioBB) Training Material

BioExcel Building Blocks (BioBB) is a software library for interoperable biomolecular simulation workflows, built within the BioExcel CoE project, and developed following best practices on software development aligned with ELIXIR.

Keywords: molecular dynamics, Docking, Modeling, life sciences

Resource type: Jupyter notebook

BioExcel Building Blocks (BioBB) Training Material https://tess.elixir-europe.org/materials/bioexcel-building-blocks-biobb-training-material BioExcel Building Blocks (BioBB) is a software library for interoperable biomolecular simulation workflows, built within the BioExcel CoE project, and developed following best practices on software development aligned with ELIXIR. Josep Lluís Gelpí Stian Soiland-Reyes molecular dynamics, Docking, Modeling, life sciences PhD students computational scientists Computational biologists
Tutorial on using MPI with containers

In this material we will briefly touch upon why MPI is such a tricky component, explain the main approaches to combine MPI with containers and discuss when it is actually worthwhile to use MPI containers.

Keywords: MPI, Containers

Resource type: Tutorial

Tutorial on using MPI with containers https://tess.elixir-europe.org/materials/tutorial-on-using-mpi-with-containers In this material we will briefly touch upon why MPI is such a tricky component, explain the main approaches to combine MPI with containers and discuss when it is actually worthwhile to use MPI containers. MPI, Containers
Tutorial on CARNIVAL

This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL

Scientific topics: RNA-Seq, Omics, Gene expression, Molecular interactions, pathways and networks

Operations: RNA-Seq analysis, Network analysis

Keywords: HPC, Signaling, RNAseq, transcriptomics

Resource type: Tutorial

Tutorial on CARNIVAL https://tess.elixir-europe.org/materials/tutorial-on-carnival This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL RNA-Seq Omics Gene expression Molecular interactions, pathways and networks HPC, Signaling, RNAseq, transcriptomics
Helis Academy course FAIR data stewardship 2021, Day 2, Infrastructure for storing and sharing data

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 2, March 18, 2021

Scientific topics: FAIR data, Data management

Operations: Data handling, Analysis

Keywords: Data analysis, Data processing, Data sharing

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 2, Infrastructure for storing and sharing data https://tess.elixir-europe.org/materials/helis-academy-course-fair-data-stewardship-2021-day-2-infrastructure-for-storing-and-sharing-data This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 2, March 18, 2021 FAIR data Data management Data analysis, Data processing, Data sharing PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 2, Tools for processing and analysing data

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 2, March 18, 2021

Scientific topics: Data management, FAIR data

Operations: Analysis, Data handling

Keywords: Data analysis, Data processing

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 2, Tools for processing and analysing data https://tess.elixir-europe.org/materials/helis-academy-course-fair-data-stewardship-2021-day-2-tools-for-processing-and-analysing-data This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 2, March 18, 2021 Data management FAIR data Data analysis, Data processing PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 1, Institute requirements

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 1, March 17, 2021

Scientific topics: Data management, FAIR data

Operations: Analysis, Data handling

Keywords: Data preserving, Data reuse, Data management planning, Data sharing, FAIR data

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 1, Institute requirements https://tess.elixir-europe.org/materials/helis-academy-course-fair-data-stewardship-2021-day-1-institute-requirements This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 1, March 17, 2021 Data management FAIR data Data preserving, Data reuse, Data management planning, Data sharing, FAIR data PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 1, Publisher requirements

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 1, March 17, 2021

Scientific topics: Data management, FAIR data

Operations: Analysis, Data handling

Keywords: Data management planning, FAIR data, Data preserving, Data sharing

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 1, Publisher requirements https://tess.elixir-europe.org/materials/helis-academy-course-fair-data-stewardship-2021-day-1-publisher-requirements This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 1, March 17, 2021 Data management FAIR data Data management planning, FAIR data, Data preserving, Data sharing PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 1, Funder requirements

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 1, March 17, 2021

Scientific topics: Data management, FAIR data

Operations: Analysis, Data handling

Keywords: Data management planning, FAIR data

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 1, Funder requirements https://tess.elixir-europe.org/materials/helis-academy-course-fair-data-stewardship-2021-day-1-funder-requirements This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 1, March 17, 2021 Data management FAIR data Data management planning, FAIR data PhD candidate
Tutorials on COBREXA

COBREXA.jl provides tutorials and notebooks with the purpose of explaining the most important concepts and functions for metabolic modelling and model handling to users, and then practicing them. The documentation contains basic tutorials (explaining the core package concepts and basic design...

Scientific topics: Personalised medicine, Simulation experiment

Operations: Modelling and simulation

Keywords: cell-level simulations, Biomodelling, HPC

Resource type: Tutorial

Tutorials on COBREXA https://tess.elixir-europe.org/materials/tutorials-on-cobrexa COBREXA.jl provides tutorials and notebooks with the purpose of explaining the most important concepts and functions for metabolic modelling and model handling to users, and then practicing them. The documentation contains basic tutorials (explaining the core package concepts and basic design ideas), advanced tutorials (describing complicated functionality required for optimised execution of large analyses) and Jupyter notebooks that demonstrate the concepts from tutorials in a more practical setting, with realistic data. Personalised medicine Simulation experiment cell-level simulations, Biomodelling, HPC
Tutorial on CellNOpt

This tutorial aims to be an introduction to i) the preparation of the Prior knowledge network (PKN) of signaling pathways and ii) the training of the PKN against biochemical data to create cell-specific models.

Scientific topics: Personalised medicine, Simulation experiment, Molecular interactions, pathways and networks

Operations: Modelling and simulation

Keywords: HPC, Biomodelling, Signalling

Resource type: Tutorial

Tutorial on CellNOpt https://tess.elixir-europe.org/materials/tutorial-on-cellnopt This tutorial aims to be an introduction to i) the preparation of the Prior knowledge network (PKN) of signaling pathways and ii) the training of the PKN against biochemical data to create cell-specific models. Personalised medicine Simulation experiment Molecular interactions, pathways and networks HPC, Biomodelling, Signalling
Introduction to qualitative modelling with MaBoSS

Boolean modelling uses a simple representation of biological entities as either active or inactive, and describes their relations with logical formulas. MaBoSS extends Boolean modelling by adding a notion of continuous time, with the introduction of rates of (in)activation. This enable the...

Introduction to qualitative modelling with MaBoSS https://tess.elixir-europe.org/materials/introduction-to-qualitative-modelling-with-maboss Boolean modelling uses a simple representation of biological entities as either active or inactive, and describes their relations with logical formulas. MaBoSS extends Boolean modelling by adding a notion of continuous time, with the introduction of rates of (in)activation. This enable the representation of physical time, and of processes with different time scales. MaBoSS simulate multiple stochastic trajectories, and produces trajectories of the probabilities of the system state. This webinar will introduce the concepts of boolean modelling, and MaBoSS’ continuous time boolean modelling, and will then demonstrate the use of WebMaBoSS, a web interface designed for easily simulating MaBoSS models.
Helis Academy course FAIR data stewardship 2021, Day 2, Finding and capturing data

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 2, March 18, 2021

Scientific topics: Data management, FAIR data

Operations: Data handling

Keywords: Data collection

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 2, Finding and capturing data https://tess.elixir-europe.org/materials/helis-academy-course-fair-data-stewardship-2021-day-2-finding-and-capturing-data-f94ad623-4ae5-4e48-925e-2afdc8567c6d This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 2, March 18, 2021 Data management FAIR data Data collection PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 2, Finding and capturing data

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 2, March 18, 2021

Scientific topics: Data quality management, FAIR data

Operations: Analysis

Keywords: Data collection

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 2, Finding and capturing data https://tess.elixir-europe.org/materials/helis-academy-course-fair-data-stewardship-2021-day-2-finding-and-capturing-data This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 2, March 18, 2021 Data quality management FAIR data Data collection PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 1, Introduction Landscape Wrap up

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 1, March 17, 2021

Scientific topics: FAIR data, Data management

Operations: Data handling, Analysis

Keywords: Data management planning, FAIR data

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 1, Introduction Landscape Wrap up https://tess.elixir-europe.org/materials/helis-academy-course-fair-data-stewardship-2021-day-1-introduction-landscape-wrap-up-f41b3204-b9e4-486c-90cd-c2a073c0b785 This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 1, March 17, 2021 FAIR data Data management Data management planning, FAIR data PhD candidate
Workshop FAIR & Data stewardship for the 2021 ITN ProEVLifeCycle

This material is part of a FAIR data stewardship follow up workshop for the Marie Curie ITN ProEVLifeCycle (The prostate cancer Extracellular Vesicle LifeCycle)

Scientific topics: FAIR data, Data management

Operations: Analysis, Data handling

Keywords: Data analysis, Data management planning, Data processing, Data sharing, Data collection, Data preserving, Data reuse

Resource type: Slidedeck

Workshop FAIR & Data stewardship for the 2021 ITN ProEVLifeCycle https://tess.elixir-europe.org/materials/workshop-fair-data-stewardship-for-the-2021-itn-proevlifecycle This material is part of a FAIR data stewardship follow up workshop for the Marie Curie ITN ProEVLifeCycle (The prostate cancer Extracellular Vesicle LifeCycle) FAIR data Data management Data analysis, Data management planning, Data processing, Data sharing, Data collection, Data preserving, Data reuse PhD candidate
Analysis of huge metabolic models with COBREXA.jl

COBREXA.jl is a new software package to enable the analysis and simulation of large metabolic models by taking advantages of modern HPC infrastructure. Mainly, it advanced the scalability of constraint-based method, using the Julia programing language and its mathematic ecosystem as a base...

Scientific topics: Simulation experiment

Keywords: cell-level simulations, HPC, Biomodelling

Resource type: Webinar

Analysis of huge metabolic models with COBREXA.jl https://tess.elixir-europe.org/materials/analysis-of-huge-metabolic-models-with-cobrexa-jl COBREXA.jl is a new software package to enable the analysis and simulation of large metabolic models by taking advantages of modern HPC infrastructure. Mainly, it advanced the scalability of constraint-based method, using the Julia programing language and its mathematic ecosystem as a base building block. We will talk about the problems that motivated the development of COBREXA.jl and show several of its main applications. Simulation experiment cell-level simulations, HPC, Biomodelling Anyone interested in simulation of metabolic models, and in PerMedCoE tools and activities
Introduction to PerMedCoE: Exascale-ready cell-level simulations for European Personalised Medicine

PerMedCoE is the HPC/Exascale Centre of Excellence for Personalised Medicine in Europe. The goal of PerMedCoE is to provide an efficient and sustainable entry point to the HPC/Exascale-upgraded methodology to translate omics analyses into actionable models of cellular functions of medical relevance.

Scientific topics: Personalised medicine

Keywords: HPC, Biomodelling, cell-level simulations

Resource type: Webinar

Introduction to PerMedCoE: Exascale-ready cell-level simulations for European Personalised Medicine https://tess.elixir-europe.org/materials/introduction-to-permedcoe-exascale-ready-cell-level-simulations-for-european-personalised-medicine PerMedCoE is the HPC/Exascale Centre of Excellence for Personalised Medicine in Europe. The goal of PerMedCoE is to provide an efficient and sustainable entry point to the HPC/Exascale-upgraded methodology to translate omics analyses into actionable models of cellular functions of medical relevance. Personalised medicine HPC, Biomodelling, cell-level simulations Anyone interested in simulation of metabolic models, and in PerMedCoE tools and activities
ELIXIR CZ Friday Coffee #5: Data Management with Data Stewardship Wizard

This short presentation was presented as part of the Friday Coffee presentation series organized by the ELIXIR CZ infrastructure and offered students a basic insight into data management and data management plans, which are important (not only) for the success of scientific projects, but...

Scientific topics: Data management

Keywords: data management plan, data stewardship, FAIR, data management, software tools

Resource type: Video, Webinar

ELIXIR CZ Friday Coffee #5: Data Management with Data Stewardship Wizard https://tess.elixir-europe.org/materials/elixir-cz-friday-coffee-5-data-management-with-data-stewardship-wizard This short presentation was presented as part of the Friday Coffee presentation series organized by the ELIXIR CZ infrastructure and offered students a basic insight into data management and data management plans, which are important (not only) for the success of scientific projects, but increasingly for grant applications as well. The presentation also introduced students to the possibility of creating these plans using the [Data Stewardship Wizard](https://ds-wizard.org), a tool that creates the data management plan by filling out a simple, synoptic questionnaire. It offers a simple and very effective solution without the need for deep knowledge of data stewardship or data management. Video available [here](https://www.youtube.com/watch?v=2YGrVGa9JYY). Data management data management plan, data stewardship, FAIR, data management, software tools Researchers data managers data stewards
A Gentle Introduction to DSW for Convergers

[Data Stewardship Wizard](https://ds-wizard.org) brings together data stewards and researchers to efficiently compose data management plans (DMPs) for their research projects. Data stewards capture their knowledge and expertise in so-called knowledge models that are turned into smart...

Scientific topics: Data governance, Data management

Keywords: Data managment plan, data stewardship, data management, software tools

Resource type: Video, Slides, Webinar

A Gentle Introduction to DSW for Convergers https://tess.elixir-europe.org/materials/a-gentle-introduction-to-dsw-for-convergers [Data Stewardship Wizard](https://ds-wizard.org) brings together data stewards and researchers to efficiently compose data management plans (DMPs) for their research projects. Data stewards capture their knowledge and expertise in so-called knowledge models that are turned into smart questionnaires filled by researchers. They can then export their answers to human-readable documents following the well-known templates such as Science Europe or Horizon 2020; or machine-actionable files for further processing. Data governance Data management Data managment plan, data stewardship, data management, software tools data managers Researchers data stewards
DSW Template Development Kit: The Tutorial

[Data Stewardship Wizard](ds-wizard.org) is a flexible questionnaire-based tool that uses Jinja2 templates to produce documents. It allows creating documents in practically any textual format. Such documents can be intended for both humans (HTML, Markdown, reStructuredText, etc.) and machines...

Scientific topics: Data management

Keywords: data stewardship, data management plan, FAIR, data management, software tools, DMP templates, template development

Resource type: Video, Slides, Webinar

DSW Template Development Kit: The Tutorial https://tess.elixir-europe.org/materials/dsw-template-development-kit-the-tutorial [Data Stewardship Wizard](ds-wizard.org) is a flexible questionnaire-based tool that uses Jinja2 templates to produce documents. It allows creating documents in practically any textual format. Such documents can be intended for both humans (HTML, Markdown, reStructuredText, etc.) and machines (e.g. RDF, YAML, or JSON). Our Template Development Kit (DSW TDK) is a command-line tool to make the work on templates efficient. Data management data stewardship, data management plan, FAIR, data management, software tools, DMP templates, template development data stewards data managers
Workshop FAIR & Data stewardship for the 2020 ITN ProEVLifeCycle

This material is part of an introductory FAIR data stewardship workshop for the Marie Curie ITN ProEVLifeCycle (The prostate cancer Extracellular Vesicle LifeCycle)

Scientific topics: FAIR data, Data management

Operations: Analysis, Data handling

Keywords: Data analysis, Data management planning, Data processing, Data sharing, Data collection, Data preserving, Data reuse

Resource type: Slidedeck

Workshop FAIR & Data stewardship for the 2020 ITN ProEVLifeCycle https://tess.elixir-europe.org/materials/workshop-fair-data-stewardship-for-the-2020-itn-proevlifecycle This material is part of an introductory FAIR data stewardship workshop for the Marie Curie ITN ProEVLifeCycle (The prostate cancer Extracellular Vesicle LifeCycle) FAIR data Data management Data analysis, Data management planning, Data processing, Data sharing, Data collection, Data preserving, Data reuse PhD candidate
Workshop FAIR & Data stewardship for the 2020 ITN COSMIC

This material is part of an introductory data stewardship workshop for the Marie Curie ITN COSMIC project (Combatting Disorders of Adaptive Immunity with Systems MedICine).

Scientific topics: Data management, FAIR data

Operations: Data handling, Analysis

Keywords: Data analysis, Data collection, Data management planning, Data preserving, Data processing, Data reuse, Data sharing

Resource type: Slidedeck

Workshop FAIR & Data stewardship for the 2020 ITN COSMIC https://tess.elixir-europe.org/materials/workshop-fair-data-stewardship-for-the-2020-itn-cosmic This material is part of an introductory data stewardship workshop for the Marie Curie ITN COSMIC project (Combatting Disorders of Adaptive Immunity with Systems MedICine). Data management FAIR data Data analysis, Data collection, Data management planning, Data preserving, Data processing, Data reuse, Data sharing PhD candidate
Using the Norwegian e-infrastructure for Life Science and usegalaxy.no

Online course on using the Norwegian e-infrastructure for Life Science (NeLS) and the national supported Galaxy (usegalaxy.no). The course will consist of lessons covering the necessary topics alternating with hands-on sessions to gain practical experience.

Keywords: NeLS, Data storage, data sharing, Data analysis

Using the Norwegian e-infrastructure for Life Science and usegalaxy.no https://tess.elixir-europe.org/materials/using-the-norwegian-e-infrastructure-for-life-science-and-usegalaxy-no Online course on using the Norwegian e-infrastructure for Life Science (NeLS) and the national supported Galaxy (usegalaxy.no). The course will consist of lessons covering the necessary topics alternating with hands-on sessions to gain practical experience. NeLS, Data storage, data sharing, Data analysis PhD postdocs Researchers
Containers & Workflow pipelines workshop

The first day (20 May 2021) is dedicated to Containers (Docker & Singularity) which are great tools for code portability and reproducibility of your analysis. You will learn how to use containers and how to build a container from scratch, share it with others and how to re-use and modify...

Keywords: Containers, Nextflow

Resource type: Training materials

Containers & Workflow pipelines workshop https://tess.elixir-europe.org/materials/containers-workflow-pipelines-workshop The first day (20 May 2021) is dedicated to Containers (Docker & Singularity) which are great tools for code portability and reproducibility of your analysis. You will learn how to use containers and how to build a container from scratch, share it with others and how to re-use and modify existing containers. After an extensive explanation on Docker containers, at the end of the first day, Singularity will be highlighted as well. On the second day (27 May 2021), you will learn how to use Nextflow for building scalable and reproducible bioinformatics pipelines and running them on a personal computer, cluster and cloud. Starting from the basic concepts we will build our own simple pipeline and add new features with every step, all in the new DSL2 language. Containers, Nextflow bioinformaticians
Elaboración de un Plan de Gestión de Datos (DMP): teoria y práctica

PDF with slides of the course in Spanish: - Data management definitions - DMP Objectives - DMP Content and structure - Competencies needed - Practical session: DMP content analysis and evaluation

Scientific topics: Data management, FAIR data

Keywords: ELIXIR-CONVERGE, DMP, data management plan, research data management, FAIR principles, DMP tools, DMP templates, tools, template, competency, DMP evaluation, evaluation, on-line, e-learning, Spanish

Resource type: PDF, e-learning, slideck/ presentation

Elaboración de un Plan de Gestión de Datos (DMP): teoria y práctica https://tess.elixir-europe.org/materials/elaboracion-de-un-plan-de-gestion-de-datos-dmp-teoria-y-practica-1cb1388d-cb82-458f-8f72-62bb55e66180 PDF with slides of the course in Spanish: - Data management definitions - DMP Objectives - DMP Content and structure - Competencies needed - Practical session: DMP content analysis and evaluation Data management FAIR data ELIXIR-CONVERGE, DMP, data management plan, research data management, FAIR principles, DMP tools, DMP templates, tools, template, competency, DMP evaluation, evaluation, on-line, e-learning, Spanish project manager Researchers
Research Data Management Introduction for researchers

Short summary of the previous session 1.Scope of the DM 2.DMP Content and structure Practical activities 3.Planning the DM of a simple project 4.DMP evaluation

Scientific topics: Data management, FAIR data

Keywords: ELIXIR-CONVERGE, DMP, data management plan, research data management, FAIR principles, DMP tools, DMP templates, tools, template, competency, DMP evaluation, evaluation, on-line, e-learning

Resource type: PDF, e-learning, slideck/ presentation

Research Data Management Introduction for researchers https://tess.elixir-europe.org/materials/research-data-management-introduction-for-researchers Short summary of the previous session 1.Scope of the DM 2.DMP Content and structure Practical activities 3.Planning the DM of a simple project 4.DMP evaluation Data management FAIR data ELIXIR-CONVERGE, DMP, data management plan, research data management, FAIR principles, DMP tools, DMP templates, tools, template, competency, DMP evaluation, evaluation, on-line, e-learning Researchers PhD students
Data Management Plans and Policies

PDF with slides of the course: - Data management definitions - RDM and DM policy - DMPs: content and competencies - DMPs for European and National funded projects

Scientific topics: Data management, FAIR data

Keywords: ELIXIR-CONVERGE, DMP, data management plan, research data management, FAIR principles, DMP tools, DMP templates, tools, template, competency, on-line, e-learning

Resource type: PDF, e-learning, slideck/ presentation

Data Management Plans and Policies https://tess.elixir-europe.org/materials/data-management-plans-and-policies PDF with slides of the course: - Data management definitions - RDM and DM policy - DMPs: content and competencies - DMPs for European and National funded projects Data management FAIR data ELIXIR-CONVERGE, DMP, data management plan, research data management, FAIR principles, DMP tools, DMP templates, tools, template, competency, on-line, e-learning project manager Researchers policy officer
Course design: Considerations for trainers – a Professional Guide

This Professional Guide in the Resources for Training Trainers series introduces a structured approach to course design, highlighting the importance of articulating learning outcomes commensurate with the cognitive complexity of the target learning, prior to devising learning experiences and...

Keywords: Curriculum development, course design, learning outcomes, Bloom's Taxonomy, assessment, course evaluation, training trainers, training material

Course design: Considerations for trainers – a Professional Guide https://tess.elixir-europe.org/materials/course-design-considerations-for-trainers-a-professional-guide This Professional Guide in the Resources for Training Trainers series introduces a structured approach to course design, highlighting the importance of articulating learning outcomes commensurate with the cognitive complexity of the target learning, prior to devising learning experiences and course content. The specific focus here is on face-to-face activities, but the guidance is also relevant for those designing online courses. Curriculum development, course design, learning outcomes, Bloom's Taxonomy, assessment, course evaluation, training trainers, training material Training instructors Trainers Training Designers Anyone who wants to become a good trainer or teacher teachers
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

Using bioinformatics to hunt SARS-CoV-2, its variants & its origins – a practical guide https://tess.elixir-europe.org/materials/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, its proteins, its origins and its evolution are explored. Bioinformatics for schools, basic bioinformatics, SARS-CoV-2 pandemic, genome analysis, protein sequence analysis, protein structure analysis, virus variants, spike protein, training material Trainers Training instructors Training Designers PhD students post-docs Life Science Researchers
Identifier mapping with Cytoscape

This vignette will show you how to map or translate identifiers from one database (e.g., Ensembl) to another (e.g, Entrez Gene). This is a common requirement for data analysis. In the context of Cytoscape, for example, identifier mapping is needed when you want to import data to overlay on a...

Keywords: ELIXIR RIR, BridgeDb

Identifier mapping with Cytoscape https://tess.elixir-europe.org/materials/identifier-mapping-with-cytoscape This vignette will show you how to map or translate identifiers from one database (e.g., Ensembl) to another (e.g, Entrez Gene). This is a common requirement for data analysis. In the context of Cytoscape, for example, identifier mapping is needed when you want to import data to overlay on a network but you don’t have matching keys. ELIXIR RIR, BridgeDb