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21 materials found

Authors: Paul Yorke  or Celia van Gelder 


Helis Academy course FAIR data stewardship 2021, Day 2, Introduction Wrap up

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: FAIR, Data management planning

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 2, Introduction Wrap up http://tess.elixir-uk.org/materials/helis-academy-course-fair-data-stewardship-2021-day-2-introduction-wrap-up 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 FAIR, Data management planning PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 5, Introduction Wrap up

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 5, March 29, 2021

Scientific topics: Data management, FAIR data

Operations: Data handling

Keywords: FAIR data, Data management planning

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 5, Introduction Wrap up http://tess.elixir-uk.org/materials/helis-academy-course-fair-data-stewardship-2021-day-5-introduction-wrap-up This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 5, March 29, 2021 Data management FAIR data FAIR data, Data management planning PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 4, Introduction Wrap up

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 4, March 24, 2021

Scientific topics: Data management, FAIR data

Operations: Data handling

Keywords: FAIR data, Data management planning

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 4, Introduction Wrap up http://tess.elixir-uk.org/materials/helis-academy-course-fair-data-stewardship-2021-day-4-introduction-wrap-up This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 4, March 24, 2021 Data management FAIR data FAIR data, Data management planning PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 6, Introduction Wrap up

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 6, March 31, 2021

Scientific topics: Data management, FAIR data

Operations: Data handling

Keywords: Data management planning, FAIR data

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 6, Introduction Wrap up http://tess.elixir-uk.org/materials/helis-academy-course-fair-data-stewardship-2021-day-6-introduction-wrap-up This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 6, March 31, 2021 Data management FAIR data Data management planning, FAIR data PhD candidate
Helis Academy course FAIR data stewardship 2021, Day 3, Introduction Wrap up

This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 3, March 22, 2021

Scientific topics: Data management, FAIR data

Operations: Data handling

Keywords: Data management planning, FAIR data

Resource type: Slidedeck

Helis Academy course FAIR data stewardship 2021, Day 3, Introduction Wrap up http://tess.elixir-uk.org/materials/helis-academy-course-fair-data-stewardship-2021-day-3-introduction-wrap-up This presentation is part of the 3rd edition of the Helis Academy FAIR data stewardship (for life sciences) course Day 3, March 22, 2021 Data management FAIR data Data management planning, FAIR data 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 http://tess.elixir-uk.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 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 http://tess.elixir-uk.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 http://tess.elixir-uk.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
ELIXIR eLearning definitions

Materials from the asynchronous learning course "ELIXIR eLearning definitions"

Keywords: eLearning, training, EeLP

Resource type: course materials, Training materials, Documentation

ELIXIR eLearning definitions http://tess.elixir-uk.org/materials/elixir-elearning-definitions Materials from the asynchronous learning course "ELIXIR eLearning definitions" Brane Leskosek Jure Dimec Eija Korpelainen Teresa Attwood Sarah Morgan Nicola Mulder Celia van Gelder Patricia Palagi eLearning, training, EeLP Researchers teachers Trainers
Implementation of Data Management Plans & Data Stewardship in practice

Materials from the ELIXIR workshop “Implementation of Data Management Plans & Data Stewardship in practice”, Sept 11, 2018 at ECCB2018, Athens, Greece.

Scientific topics: Data submission, annotation, and curation, Data management

Keywords: data management, data stewardship, eLearning, EeLP

Resource type: course materials, Training materials, Slides

Implementation of Data Management Plans & Data Stewardship in practice http://tess.elixir-uk.org/materials/implementation-of-data-management-plans-data-stewardship-in-practice Materials from the ELIXIR workshop “Implementation of Data Management Plans & Data Stewardship in practice”, Sept 11, 2018 at ECCB2018, Athens, Greece. Celia van Gelder Roland Krause Mateusz Kuzak Brane Leskosek Marko Vidak Robert Pergl Marek Suchanek Jan Slifka Vojtech Knaisl Data submission, annotation, and curation Data management data management, data stewardship, eLearning, EeLP bioinformaticians data stewards
Ensembl Browser Workshop: Plants and Microbes

Ensembl is a joint project between European Bioinformatics Institute (EMBL-EBI) and the Wellcome Trust Sanger Institute to provide a source of thorough, integrated annotation data across a variety of genomes. This one-day workshop not only offers participants the opportunity to glean background...

Ensembl Browser Workshop: Plants and Microbes http://tess.elixir-uk.org/materials/ensembl-browser-workshop-plants-and-microbes Ensembl is a joint project between European Bioinformatics Institute (EMBL-EBI) and the Wellcome Trust Sanger Institute to provide a source of thorough, integrated annotation data across a variety of genomes. This one-day workshop not only offers participants the opportunity to glean background information about the project and resulting resources, but also to gain vital hands-on experience in the use of the Ensembl genome browser. This workshop is themed according to the target audience and is aimed at wetlab researchers, as well as being customisable to include an introduction for complete novices up to advanced usage for the more frequent users. 2016-04-14 2017-10-09
Signalling Networks: From Data to Modelling

What is the course about? Signalling pathways and networks are very important to regulate and control cellular processes, cell fate, and their malfunctions often lead to diseases, such as cancer or diabetes. This course provides an introductory overview of the most useful resources and tools to...

Keywords: Signalling

Signalling Networks: From Data to Modelling http://tess.elixir-uk.org/materials/signalling-networks-from-data-to-modelling What is the course about? Signalling pathways and networks are very important to regulate and control cellular processes, cell fate, and their malfunctions often lead to diseases, such as cancer or diabetes. This course provides an introductory overview of the most useful resources and tools to investigate signalling pathways and networks, and also introduces basic approaches to model signalling events. The hands-on training will give a wide overview of tools and concepts related to signalling networks. What will I Learn? In this course you will learn how to use Cytoscape, where to find the most reliable signaling data, how to reconstruct, analyze and visualize a network. You will also learn how to develop your own models, mostly with logic modelling, what other modelling approaches exist, and how you can apply a model for your own research work. Signalling Grad students post-docs 2016-04-14 2017-10-09
Network Analysis with Cytoscape and PSICQUIC

This workshop will guide novice users through the process of analysing interaction networks – that allow biologists to map and characterise signalling pathways and to predict the function of unknown proteins. It will use practical examples in the popular open-source tool Cytoscape and the...

Keywords: Cytoscape

Network Analysis with Cytoscape and PSICQUIC http://tess.elixir-uk.org/materials/network-analysis-with-cytoscape-and-psicquic This workshop will guide novice users through the process of analysing interaction networks – that allow biologists to map and characterise signalling pathways and to predict the function of unknown proteins. It will use practical examples in the popular open-source tool Cytoscape and the PSICQUIC client to access several protein interaction repositories at the same time to integrate protein data from different sources. Data from external sources will then be incorporated using different Cytoscape apps to perform clustering and GO enrichment analysis over our newly created networks. Cytoscape Biologists, Genomicists, Computer Scientists 2016-04-14 2017-10-09
Metagenomics 2015

Link to the GitHub repo containing all the publicly available files from the 2015 Metagenomics course held at TGAC in November 2015

Scientific topics: Metagenomics

Keywords: Metagenomics

Metagenomics 2015 http://tess.elixir-uk.org/materials/metagenomics-2015 Link to the GitHub repo containing all the publicly available files from the 2015 Metagenomics course held at TGAC in November 2015 Metagenomics Metagenomics PhD post-docs 2015-11-23 2017-10-09
Introduction to Linux Command Line

Introduction to Linux basic command line

Scientific topics: Computer science

Keywords: Linux basics

Introduction to Linux Command Line http://tess.elixir-uk.org/materials/introduction-to-linux-command-line Introduction to Linux basic command line Computer science Linux basics 2015-10-28 2017-10-09
EMBO 2015

Link to the GitHub repository containing all the training materials made available for the 2015 EMBO event held at TGAC

Scientific topics: Protein binding sites, Molecular interactions, pathways and networks

Keywords: Bioinformatics, Multiple sequence alignment, Network visualization, Protein protein interaction networks

EMBO 2015 http://tess.elixir-uk.org/materials/embo-2015 Link to the GitHub repository containing all the training materials made available for the 2015 EMBO event held at TGAC Protein binding sites Molecular interactions, pathways and networks Bioinformatics, Multiple sequence alignment, Network visualization, Protein protein interaction networks PhD students post-docs 2015-10-08 2017-10-09
GBS

Training Materials from the 2015 GBS course run by TGAC

Keywords: Genotyping

GBS http://tess.elixir-uk.org/materials/gbs Training Materials from the 2015 GBS course run by TGAC Genotyping Graduate Students post-docs 2015-09-17 2017-10-09
De Novo

Training Materials from the 2015 De Novo course run by TGAC

Keywords: De novo, De novo genome assembly

De Novo http://tess.elixir-uk.org/materials/de-novo Training Materials from the 2015 De Novo course run by TGAC De novo, De novo genome assembly PhD PhD students post-docs postdoctoral researchers 2015-09-17 2017-10-09
Python @ TGAC - Python for Life Scientists: Managing biological data with Python

Python is an object-oriented programming language that is ideal for biological data analysis. The course will start with very basic language concepts and instructions and will cover all the main language aspects, including variables, types, modules, functions, exceptions, control of flux, input,...

Keywords: Biopython, Python, Python biologists

Python @ TGAC - Python for Life Scientists: Managing biological data with Python http://tess.elixir-uk.org/materials/python-tgac-python-for-life-scientists-managing-biological-data-with-python Python is an object-oriented programming language that is ideal for biological data analysis. The course will start with very basic language concepts and instructions and will cover all the main language aspects, including variables, types, modules, functions, exceptions, control of flux, input, output, and classes. All the examples and practical sessions will focus on solving particular biological problems. In particular, examples and practical sessions will cover: Working with DNA and protein sequences Data retrieval from files and their manipulation Running applications, such as BLAST, locally and from a script Finding motifs in sequences Parsing Swiss-Prot files, PDB files, ENSEMBL records, blast output files, etc. Biopython will be also introduced and applied to some of the mentioned examples. The course is meant to be highly interactive and the students will continuously put theory into practice while learning. By the end of the course, the students will have a good understanding of Python basics and will have acquired the skills to manage any type of bioinformatics record and to run applications from scripts. Unix/Linux basic skills will be provided at the beginning of the course. Biopython, Python, Python biologists PhD post-docs 2015-07-14 2017-10-09
De Novo Assembly @ TGAC 2015

This course took place between 12-15 May 2015 Overview: The course will provide an introduction to de novo assembly, with a hands on introduction followed by in-depth analysis of the key steps in the process. It covers several aspects such as the initial setup of a de novo genome sequencing...

Keywords: De novo

De Novo Assembly @ TGAC 2015 http://tess.elixir-uk.org/materials/de-novo-assembly-tgac-2015 This course took place between 12-15 May 2015 Overview: The course will provide an introduction to de novo assembly, with a hands on introduction followed by in-depth analysis of the key steps in the process. It covers several aspects such as the initial setup of a de novo genome sequencing project, quality control and preprocessing of datasets, generation and evaluation of first pass assemblies, assembly improvement and finishing. Practical exercises will be performed on small-scale real datasets, including Illumina and Pacbio sequences, including best practices and tips based on TGAC’s faculty experience. The course will consist of a mixture of conceptual lectures, methodological lectures and hands on sessions, as well as group activities and discussions. The participants will gain first-hand experience and understanding on NGS assembly, working with the assistance of the faculty, troubleshooting small problems, and reviewing the results. De novo PhD post-docs 2015-07-14 2017-10-09
Bioinformatics Introductory Module

This Bioinformatics Introductory Module for self-study was designed for future students of the  Molecular Mechanisms of Disease (MMD) master’s program at Radboud University Medical Centre. To level out the starting differences in bioinformatics knowledge between this incoming heterogeneous group...

Keywords: Bioinformatics, Genome browsing, Genomics, Protein structure

Bioinformatics Introductory Module http://tess.elixir-uk.org/materials/bioinformatics-introductory-module This Bioinformatics Introductory Module for self-study was designed for future students of the  Molecular Mechanisms of Disease (MMD) master’s program at Radboud University Medical Centre. To level out the starting differences in bioinformatics knowledge between this incoming heterogeneous group of students as much as possible, we have designed an introductory course module that should allow them – via self study and hands-on exercises – to acquire sufficient basic bioinformatics knowledge. Keywords: Databases, Sequence homology, Phylogeny, Protein structure, Microarrays, Proteomics, Expression analysis, Protein-protein interaction, Cluster analysis, protein modelling, networks, bioinformatics. Anticipated time needed to complete the module: 40 hours.  Answers for all the exercises are available on request. Of course you do need internet connection to perform the hands-on exercises. There is no need, however, to install programs onto your computer and also low-speed data transfer should be sufficient. All literature that is cited and used throughout the module was taken from open access sources.   Bioinformatics, Genome browsing, Genomics, Protein structure Life Science Researchers Master students 2014-06-27 2017-10-09