BioData.pt | ELIXIR PT Training Data Stewards for Life Sciences - Intro Course
BioData.pt | ELIXIR Portugal, in collaboration with several other organizations has designed a program to train the first generation of Data Stewards for the life sciences, to support the implementation of data management, open science and FAIR data principles in Portuguese R&I organizations.
Scientific topics: Data management, Open science, FAIR data
Keywords: Data management plan, data-science, data-analysis, Data Integration, training, open science, data FAIRness, FAIR data, FAIR, FAIR principles, life sciences, data life cycle
Resource type: Training materials
BioData.pt | ELIXIR PT Training Data Stewards for Life Sciences - Intro Course
https://doi.org/10.5281/zenodo.6599750
http://tess.elixir-uk.org/materials/biodata-pt-elixir-pt-training-data-stewards-for-life-sciences-intro-course
BioData.pt | ELIXIR Portugal, in collaboration with several other organizations has designed a program to train the first generation of Data Stewards for the life sciences, to support the implementation of data management, open science and FAIR data principles in Portuguese R&I organizations.
Ana M. P. Melo
Filipa Pereira
Pedro Príncipe
Celia W.G. van Gelder
Mijke Jetten
Daniel Faria
Data management
Open science
FAIR data
Data management plan, data-science, data-analysis, Data Integration, training, open science, data FAIRness, FAIR data, FAIR, FAIR principles, life sciences, data life cycle
Researchers
DSW Workshop for Finnish Data Support Personnel
Presentation from DSW Workshop to explain what is the purpose of smart data management plans as living documents, core ideas behind [Data Stewardship Wizard](https://ds-wizard.org), and how to use it in practice. It also briefly explains the versability of DSW, possibilities of integrations with...
Scientific topics: Data management
Keywords: DMP, DMP tools, data stewardship, FAIR, FAIR data
Resource type: Presentation
DSW Workshop for Finnish Data Support Personnel
https://zenodo.org/record/4686941#.YePytfiLpPZ
http://tess.elixir-uk.org/materials/dsw-workshop-for-finnish-data-support-personnel
Presentation from DSW Workshop to explain what is the purpose of smart data management plans as living documents, core ideas behind [Data Stewardship Wizard](https://ds-wizard.org), and how to use it in practice. It also briefly explains the versability of DSW, possibilities of integrations with other systems in institutions, and other customizations.
Marek Suchánek
Tereza Machačová
Data management
DMP, DMP tools, data stewardship, FAIR, FAIR data
Researchers
data stewards
DS Wizard and its Use
This training gives an overview and explains what is the purpose of smart data management plans as living documents, core ideas behind [Data Stewardship Wizard](https://ds-wizard.org), and how to use it in practice. Furthermore, it shows the versability of DSW, its top-notch features that make...
Scientific topics: Data management
Keywords: DMP, DMP tools, data stewardship, FAIR, FAIR data
Resource type: Presentation
DS Wizard and its Use
https://www.natur.cuni.cz/eng/aktuality/seminar-data-management-plan?set_language=en
http://tess.elixir-uk.org/materials/ds-wizard-and-its-use
This training gives an overview and explains what is the purpose of smart data management plans as living documents, core ideas behind [Data Stewardship Wizard](https://ds-wizard.org), and how to use it in practice. Furthermore, it shows the versability of DSW, its top-notch features that make data management planning easier and more efficient, as well as possibilities of customization and integrations with other systems in institutions.
Tereza Machačová
Vojtěch Knaisl
Jan Slifka
Data management
DMP, DMP tools, data stewardship, FAIR, FAIR data
Researchers
data stewards
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://youtu.be/2YGrVGa9JYY
http://tess.elixir-uk.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).
Jana Freeman
Tereza Machacova
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
http://doi.org/10.5281/zenodo.4452655
http://tess.elixir-uk.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.
Jan Slifka
Data governance
Data management
Data managment plan, data stewardship, data management, software tools
data managers
Researchers
data stewards
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://elixir.mf.uni-lj.si/enrol/index.php?id=59
http://tess.elixir-uk.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.
Erik Hjerde
NeLS, Data storage, data sharing, Data analysis
PhD
postdocs
Researchers
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://b2drop.bsc.es/index.php/s/dGwxrkkArQEzXNF
http://tess.elixir-uk.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
Nadia Tonello
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://b2drop.bsc.es/index.php/s/QNMKXn7M3TQzwCt
http://tess.elixir-uk.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
Nadia Tonello
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://b2drop.bsc.es/index.php/s/KpcJ2fJYqgf5HsH
http://tess.elixir-uk.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
Nadia Tonello
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
Research Data Management and Sharing MOOC
This course will provide learners with an introduction to research data management and sharing. After completing this course, learners will understand the diversity of data and their management needs across the research data lifecycle, be able to identify the components of good data management...
Scientific topics: Data management
Keywords: Data Life Cycle, Data managment plan
Resource type: online modules
Research Data Management and Sharing MOOC
https://www.digitalresearchservices.ed.ac.uk/training/research-data-management-and-sharing-mooc
http://tess.elixir-uk.org/materials/research-data-management-and-sharing-mooc
This course will provide learners with an introduction to research data management and sharing. After completing this course, learners will understand the diversity of data and their management needs across the research data lifecycle, be able to identify the components of good data management plans, and be familiar with best practices for working with data including the organization, documentation, and storage and security of data. Learners will also understand the impetus and importance of archiving and sharing data as well as how to assess the trustworthiness of repositories.
University of Edinburgh
University of Carolina
Data management
Data Life Cycle, Data managment plan
Life Science Researchers
Researchers
Data publishing and archival
Slides for the "Data publishing and archival" session of the "Research Data Management and Stewardship Training" held on 14 June 2021 by ELIXIR-Luxembourg.
Keywords: Data publishing, data archiving, Data preserving
Resource type: Presentation
Data publishing and archival
https://doi.org/10.5281/zenodo.5524793
http://tess.elixir-uk.org/materials/data-publishing-and-archival
Slides for the "Data publishing and archival" session of the "Research Data Management and Stewardship Training" held on 14 June 2021 by ELIXIR-Luxembourg.
Olga Krebs
Alexey Kolodkin
Pinar Alper
Roland Krause
Nene Barry
Vilem Ded
Data publishing, data archiving, Data preserving
Master students
data stewards
Researchers
PhD candidates
Introduction to research data management, data management planning and services provided by CSC – IT Center for Science
Four short training videos that introduce research data management and data management planning and how to get started with a DMP. In the last part we introduce CSC and ELIXIR services available for an example research group at different stages of their project.
Keywords: DMP, RDM, plan, research data management, data management, data management plan, ELIXIR-CONVERGE
Resource type: Series of videos, Video, youtube video
Introduction to research data management, data management planning and services provided by CSC – IT Center for Science
https://www.youtube.com/watch?v=Ol7mniw687E&list=PLD5XtevzF3yEZw-8LadtaGVV8Um6CbMja
http://tess.elixir-uk.org/materials/introduction-to-research-data-management-data-management-planning-and-services-provided-by-csc-it-center-for-science
Four short training videos that introduce research data management and data management planning and how to get started with a DMP. In the last part we introduce CSC and ELIXIR services available for an example research group at different stages of their project.
Siiri Fuchs
Minna Ahokas
Maria Lehtivaara
DMP, RDM, plan, research data management, data management, data management plan, ELIXIR-CONVERGE
Researchers
Life Science Researchers
Undergraduate students
Master students
PhD candidates
postdoctoral researchers
Senior Researchers, Lab Managers, Postdocs and PhD Students with basic knowledge of DMPs. Participants in the "Introduction to Data Management Plans" workshop.
Practicalities of data handling
Slides for the "Practicalities of data handling" session of the "Research Data Management and Stewardship Training" held regularly by ELIXIR-Luxembourg.
Scientific topics: Data management, Data acquisition, Data security
Operations: Data handling
Keywords: data encryption, data protection, setup, checksums, Data transfer, Data storage, data organisation
Resource type: Presentation
Practicalities of data handling
https://doi.org/10.5281/zenodo.4068227
http://tess.elixir-uk.org/materials/practicalities-of-data-handling
Slides for the "Practicalities of data handling" session of the "Research Data Management and Stewardship Training" held regularly by ELIXIR-Luxembourg.
Vilem Ded
Pinar Alper
Roland Krause
Nene Barry
Data management
Data acquisition
Data security
data encryption, data protection, setup, checksums, Data transfer, Data storage, data organisation
Researchers
PhD
Master students
Reproducible analysis
Slides for the "Reproducible analysis" session of the "Best practices in research data management and stewardship" held regularly by ELIXIR-Luxembourg.
Scientific topics: Data architecture, analysis and design
Keywords: Workflows, Literate programming, Reproducible Science, Data analysis
Resource type: Presentation
Reproducible analysis
https://doi.org/10.5281/zenodo.4071505
http://tess.elixir-uk.org/materials/reproducible-analysis
Slides for the "Reproducible analysis" session of the "Best practices in research data management and stewardship" held regularly by ELIXIR-Luxembourg.
Roland Krause
Pinar Alper
Vilem Ded
Data architecture, analysis and design
Workflows, Literate programming, Reproducible Science, Data analysis
PhD candidates
Researchers
EJP RD MOOC "Diagnosing Rare Diseases: from the Clinic to Research and back"
Discover the role of research, clinical investigation and data sharing in diagnosing rare diseases. This course offers an exploration of key questions around rare disease diagnostic research and issues today, as well as insights into patient experiences.
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: e-learning
EJP RD MOOC "Diagnosing Rare Diseases: from the Clinic to Research and back"
https://www.futurelearn.com/courses/rare-genetic-disease
http://tess.elixir-uk.org/materials/ejp-rd-mooc-diagnosing-rare-diseases-from-the-clinic-to-research-and-back
Discover the role of research, clinical investigation and data sharing in diagnosing rare diseases. This course offers an exploration of key questions around rare disease diagnostic research and issues today, as well as insights into patient experiences.
Rare diseases
Rare Diseases & Research
PhD students
postdoctoral researchers
Researchers
healthcare professionals
Patient Advocates
rare disease patients representatives
Plant Phenotyping Data managment Webinar (MIAPPE)
The Minimal Information About Plant Phenotyping Experiment, MIAPPE (www.miappe.org), has been designed by ELIXIR, EMPHASIS and Bioversity international, to guide plant scientist in the management of experimental data. Furthermore, since genetic studies relies on the integration and the linking...
Scientific topics: Data submission, annotation, and curation, Data quality management, Phenomics, Plant biology
Operations: Standardisation and normalisation
Resource type: Video, Slides
Plant Phenotyping Data managment Webinar (MIAPPE)
https://youtu.be/4FOQPAWl6_M
http://tess.elixir-uk.org/materials/plant-phenotyping-data-managment-webinar-miappe
The Minimal Information About Plant Phenotyping Experiment, MIAPPE (www.miappe.org), has been designed by ELIXIR, EMPHASIS and Bioversity international, to guide plant scientist in the management of experimental data. Furthermore, since genetic studies relies on the integration and the linking between phenotype and genotype datasets, relevant section of MIAPPE are beginning to be used for genotyping standards. This Webinar will give an overview of the current practices and methods for plant phenotyping data standardization, and how to deal with the variability and heterogeneity inherent to research and breeding data sets. Data management approaches at some of the major research organizations will be given as examples.
The recording is available [here](https://youtu.be/4FOQPAWl6_M) and the slides are [here](https://drive.google.com/file/d/1FORlCX662T9dxiG4uzQwVXDXnq-sP0FP/view?usp=sharing)
Cyril Pommier
Cyril Pommier
Anne-Françoise Adam-Blondon
Célia Michotey
Data submission, annotation, and curation
Data quality management
Phenomics
Plant biology
Researchers
Biologists, Genomicists, Computer Scientists
Biologists
software developers, bioinformaticians
FAIR principles applied to bioinformatics
Content of the training material:
- Introduction to reproducibility
- encapsulate a work environment (docker)
- design and execute workflows (snakemake)
- IFB infrastructure (Slurm cluster)
- managing software versions (git)
- managing software environments (conda)
- ensure...
Keywords: FAIR, Reproducible Science, Open science, Data analysis, Data processing
Resource type: Training materials
FAIR principles applied to bioinformatics
https://github.com/IFB-ElixirFr/IFB-FAIR-bioinfo-training
http://tess.elixir-uk.org/materials/fair-principles-applied-to-bioinformatics
Content of the training material:
- Introduction to reproducibility
- encapsulate a work environment (docker)
- design and execute workflows (snakemake)
- IFB infrastructure (Slurm cluster)
- managing software versions (git)
- managing software environments (conda)
- ensure the traceability of analysis using Notebooks.
The training material is in french
Thomas Denecker
Claire Toffano-Nioche
Céline Hernandez
Julien Seiler
Gildas Le Corguillé
Hélène Chiapello
FAIR, Reproducible Science, Open science, Data analysis, Data processing
bioinformaticians
software developers, bioinformaticians
computational scientists
Researchers
Use Scholia and Wikidata to find scientific literature
Scholia is a useful tool for finding scientific literature. Based on the main topic of a publication, you can find literature similar to a publication you are looking into or literature you didn’t know about or consider. Additionally, you can take advantage of all of the annotation work of others...
Keywords: Literature
Resource type: Tutorial
Use Scholia and Wikidata to find scientific literature
https://laurendupuis.github.io/Scholia_tutorial/
http://tess.elixir-uk.org/materials/use-scholia-and-wikidata-to-find-scientific-literature
Scholia is a useful tool for finding scientific literature. Based on the main topic of a publication, you can find literature similar to a publication you are looking into or literature you didn’t know about or consider. Additionally, you can take advantage of all of the annotation work of others when finding literature. Proper annotation also makes scientific literature more findable.
Lauren Dupuis
Literature
Researchers
Research Data Management online courses
eLearning course about the importance of good research data management (RDM)
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: e-learning
Research Data Management online courses
https://vidensportal.deic.dk/en/RDMELearn
http://tess.elixir-uk.org/materials/research-data-management-online-courses
eLearning course about the importance of good research data management (RDM)
Rare diseases
Rare Diseases & Research
PhD Students
Researchers
Support Staff
bio.tools documentation
Documentation for the [bio.tools](https://bio.tools) Bioinformatics Tools and Services Discovery Portal.
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
bio.tools documentation
https://biotools.readthedocs.io
http://tess.elixir-uk.org/materials/bio-tools-documentation
Documentation for the [bio.tools](https://bio.tools) Bioinformatics Tools and Services Discovery Portal.
Ontology and terminology
Computational biology
Data submission, annotation, and curation
Bioinformatics
Tools, Curation, Software, Sofware curation, Tool curation
Researchers
Software providers
Developers
Curators
WheatIS DataDiscovery webinar
The [WheatIS project](http://www.wheatis.org/) aims at building an International Wheat Information System to support the wheat research community. The main objective is to provide a single-access web base system to access to the available data resources and bioinformatics tools. The project is...
Scientific topics: Data management
Keywords: wheat, information system, data discovery
Resource type: Webinar, Slides, Video
WheatIS DataDiscovery webinar
https://wheat-urgi.versailles.inrae.fr/About-us/News/WheatIS-webinar-replay
http://tess.elixir-uk.org/materials/wheatis-datadiscovery-webinar
The [WheatIS project](http://www.wheatis.org/) aims at building an International Wheat Information System to support the wheat research community. The main objective is to provide a single-access web base system to access to the available data resources and bioinformatics tools. The project is endorsed by the [Wheat Initiative](https://www.wheatinitiative.org/).
The [WheatIS DataDiscovery tool](https://urgi.versailles.inrae.fr/wheatis/) allows to search data in all the wheat resources around the world.
This Webinar described how to use the tool, what data are available, how to join, etc.
The replay is available on [Youtube](https://youtu.be/FoVXBhO8arY).
Raphaël Flores
Cyril Pommier
Nicolas Francillonne
Hadi Quesneville
Anne-Françoise Adam-Blondon
Michael Alaux
Taner Sen
Data management
wheat, information system, data discovery
Researchers
Scientists
Data Stewardship Wizard Workshop (Feb 2020)
[Data Stewardship Wizard](ds-wizard.org) brings together data stewards and researchers to allow managing data in projects efficiently and in a FAIR manner. Data stewards can easily capture the knowledge including required project data and decisions in knowledge models that are then turned into...
Scientific topics: Data management, Data governance
Keywords: Data management plan, data stewardship, FAIR, data management, software tools
Resource type: Video, Webinar, Slides
Data Stewardship Wizard Workshop (Feb 2020)
https://doi.org/10.5281/zenodo.3689221
http://tess.elixir-uk.org/materials/data-stewardship-wizard-workshop-feb-2020
[Data Stewardship Wizard](ds-wizard.org) brings together data stewards and researchers to allow managing data in projects efficiently and in a FAIR manner. Data stewards can easily capture the knowledge including required project data and decisions in knowledge models that are then turned into per-project questionnaires to be filled by researchers. This workshop explains the core functionality of the Data Stewardship Wizard.
Video recording from the workshop is available **[here](https://www.youtube.com/watch?v=aGpr6JFMuiE)**.
Jan Slifka
Data management
Data governance
Data management plan, data stewardship, FAIR, data management, software tools
Researchers
data stewards
Beginners introduction to Git and GitHub
__Morning session__ (Sergio and Mark) https://tinyurl.com/git-intro-zoology:
- Background and motivation
- What is version control? What is Git? What is GitHub?
- How can you use Git and GitHub? How can they be useful for you?
- Practical session: working with Git and GitHub
__Afternoon...
Keywords: Git, GitHub, control version, Reproducibility
Resource type: Training materials
Beginners introduction to Git and GitHub
https://github.com/semacu/20181003_Intro_git_GitHub/blob/master/README.md
http://tess.elixir-uk.org/materials/beginners-introduction-to-git-and-github
__Morning session__ (Sergio and Mark) https://tinyurl.com/git-intro-zoology:
- Background and motivation
- What is version control? What is Git? What is GitHub?
- How can you use Git and GitHub? How can they be useful for you?
- Practical session: working with Git and GitHub
__Afternoon session__ (Mark and Anne) https://tinyurl.com/git-course: markdown, pages and wikis; creating good README files; issue tracking; sofware licenses
Sergio Martínez Cuesta
Mark Fernandes
pajanne
Git, GitHub, control version, Reproducibility
Researchers
Data Management Planning
Slides for the Data Management Plannning session of the "Research Data Manegement and Stewardship Training" held regularly by ELIXIR-Luxembourg
Keywords: Data management plan
Resource type: Presentation
Data Management Planning
https://doi.org/10.5281/zenodo.3609525
http://tess.elixir-uk.org/materials/data-management-planning
Slides for the Data Management Plannning session of the "Research Data Manegement and Stewardship Training" held regularly by ELIXIR-Luxembourg
Pinar Alper
Data management plan
Researchers
data steward / data manager
PhD candidates
Master students
Introduction to FAIR principles
Slides for the "Introduction to FAIR Principles" session of the "Research Data Manegement and Stewardship Training" held regularly by ELIXIR-Luxembourg.
Keywords: FAIR data
Resource type: Presentation
Introduction to FAIR principles
https://doi.org/10.5281/zenodo.3609967
http://tess.elixir-uk.org/materials/introduction-to-fair-principles
Slides for the "Introduction to FAIR Principles" session of the "Research Data Manegement and Stewardship Training" held regularly by ELIXIR-Luxembourg.
Pinar Alper
Roland Krause
FAIR data
Researchers
data steward / data manager
PhD candidates
Master students
Implementing GDPR in a Biomedical Research Institute
Slides for the "Data protection, working with sensitive human data in research." session of the "Research Data Management and Stewardship Training" held regularly by ELIXIR-Luxembourg.
Scientific topics: Data management, Data governance
Keywords: GDPR, data protection, sensitive data
Implementing GDPR in a Biomedical Research Institute
https://doi.org/10.5281/zenodo.3609974
http://tess.elixir-uk.org/materials/implementing-gdpr-in-a-biomedical-research-institute
Slides for the "Data protection, working with sensitive human data in research." session of the "Research Data Management and Stewardship Training" held regularly by ELIXIR-Luxembourg.
Pinar Alper
Regina Becker
Vilem Ded
Data management
Data governance
GDPR, data protection, sensitive data
Researchers
data stewards
data managers
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
https://www.mygoblet.org/training-portal/materials/blast-and-multiple-sequence-alignment-msa-programs
http://tess.elixir-uk.org/materials/blast-and-multiple-sequence-alignment-msa-programs-0b2b34d0-a157-49d4-a065-3dcad67ff99d
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 new data is very useful to the research field through the development of bioinformatics tools and databases that deal with large amount of sequences. Among them, BLAST (Basic Local Alignment Search Tool) and MSA () programs are very efficient for protein or nucleotide sequence similarity search.
The present course introduces the main biological databases, alignment tool BLAST and Multiple sequence alignments (MSA) programs, and interpretation of results.
Goal
The ultimate aim is the better management of animal diseases by preparing laboratory technicians, veterinarians and molecular epidemiologists from diagnostic and research laboratories of developing FAO and IAEA member states, to be self-sufficient in the data analysis by interpreting the phylogenetic trees and their relationships.
Target audience
Researchers, Laboratory technicians, veterinarians, epidemiologists from diagnostic and research laboratories of member states of IAEA and FAO. The concepts are explained in generalized way to help all academicians, researchers, students from all countries working in the field of molecular genetics and epidemiology.
AuthorsViral-zone, Swiss-Prot group at the SIB Swiss Institute of Bioinformatics
Patricia Palagi
Blast, E learning, Multiple sequence alignment
Bench biologists
Biologists
Laboratory technicians
Researchers
Veterinarians
2014-04-28
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
Phylogenetics of animal viral pathogens
https://www.mygoblet.org/training-portal/materials/phylogenetics-animal-viral-pathogens
http://tess.elixir-uk.org/materials/phylogenetics-of-animal-viral-pathogens-428432a3-67ca-4284-8962-fefc2ade75db
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 useful in understanding their pathogenicity and molecular epidemiology. The usage of this data in developing efficient molecular diagnostic tools needs basic understanding of the phylogenetic analysis. Phylogenetic classification, construction of trees, interpretation unveils the geographical distribution and migration of pathogens which helps in better management of animal diseases.
The present course is designed with introduction to phylogenetics, tools, building and interpreting trees and finally its application to veterinary diagnostics. Though the course is driven in veterinary aspects, the same implicates to the human and plant pathogen study.
Goal
The ultimate aim is the better management of animal diseases by preparing laboratory technicians, veterinarians and molecular epidemiologists from diagnostic and research laboratories of developing FAO and IAEA member states, to be self-sufficient in the data analysis by interpreting the phylogenetic trees and their relationships.
Target audience
Researchers, Laboratory technicians, veterinarians, epidemiologists from diagnostic and research laboratories of member states of IAEA and FAO. The concepts are explained in generalized way to help all academicians, researchers, students from all countries working in the field of molecular genetics and epidemiology.
AuthorsViral-Zone, Swiss-Prot Group at SIB Swiss Institute of Bioinformatics
Patricia Palagi
Animal pathogens, E learning, Phylogenetics
Bench biologists
Biologists
Laboratory technicians
Researchers
Veterinarians
2014-04-28
Essential Steps of the FAIRification Process
Since 2014, a number of FAIR Stakeholders have developed tools and methods around the FAIRifcation of typical datasets. In the last 5 years, these efforts were field tested in a series of "Bring Your Own Data" Workshops". This material documents the accumulated practical & teaching...
Keywords: FAIR, data stewardship, metadata, linked data
Resource type: Training materials
Essential Steps of the FAIRification Process
https://osf.io/avrys/
http://tess.elixir-uk.org/materials/essential-steps-of-the-fairification-process
Since 2014, a number of FAIR Stakeholders have developed tools and methods around the FAIRifcation of typical datasets. In the last 5 years, these efforts were field tested in a series of "Bring Your Own Data" Workshops". This material documents the accumulated practical & teaching experiences from BYODS as well as more high-level FAIR awareness trainings. This document was formerly known as the "Big Book of FAIRification".
Erik Schultes
Annika Jacobsen
Mark Thompson
Kristina Hettne
Mateusz Kuzak
Bert Meerman
Mascha Jansen
Rob Hooft
FAIR, data stewardship, metadata, linked data
Researchers
Support Staff
data librarians
software developers, bioinformaticians
FAIR Data Stewardship - Data sharing, archiving and publishing
The workshop introduces the concepts and gives hands-on experience with tools which allow safe data sharing, archiving and publishing on example services. Moreover, participants of the workshop explore together different roles which are defined around data publication and how responsibilities...
Keywords: Data Life Cycle, FAIR, data management, data stewardship, data repositories, data sharing, data publication
Resource type: Slides, Training materials
FAIR Data Stewardship - Data sharing, archiving and publishing
https://doi.org/10.5281/zenodo.3066870
http://tess.elixir-uk.org/materials/fair-data-stewardship-data-sharing-archiving-and-publishing
The workshop introduces the concepts and gives hands-on experience with tools which allow safe data sharing, archiving and publishing on example services. Moreover, participants of the workshop explore together different roles which are defined around data publication and how responsibilities towards data are distributed. The course does not require any prior knowledge.
Christine Staiger
Jasmin Karoline Böhmer
Data Life Cycle, FAIR, data management, data stewardship, data repositories, data sharing, data publication
General Interest
Scientists
Researchers
data stewards