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PhenoMeNal: accessing metabolomics workflows in Galaxy

• beginner
Metabolomics Chemical biology Galaxy
Video

A common framework for designing portable federated pipelines

•• intermediate
Data architecture, analysis and design data access federated data analysis
Installation instructions, Manual

How to use Common Workflow Language

• beginner
Workflows commonwl common workflow language CWL eLearning EeLP
Recorded webinar, Slidedeck

Europe PMC API workshop: Part two

API Literature search Literature database search Europe PMC Annotations
Online material, Recording, hands-on tutorial

MaBoSS: a tool for modelling biological systems

• beginner
Mathematical modelling cancer Signalling boolean modelling logical modelling
Recorded webinar

Exploring metabolite metabolism using the Enzyme Portal

Enzymes Metabolomics
Training materials, Video

GA4GH Passports and ELIXIR AAI

•• intermediate
AAI GA4GH Passports Auhtorisation
Video

Status Update Code of Conduct: Teaming up & Talking about it

•• intermediate
GDPR Healthcare research data harmonization
Webinar

EBI Metagenomics: analysing and exploring metagenomics data

Metagenomics MGnify Sequence Analysis Microbiology
e-learning

2024 highlights: A year of on-demand training

Bioinformatics Introduction
Video

Useful ontologies for harmonizing cohort data

• beginner
Data integration and warehousing Data management Ontology and terminology Ontologies Cohort data data annotation
Video

Applying data standards to the harmonization of COVID-19 datasets from different sources

• beginner
Data integration and warehousing Data integration Standards Standardised vocabulary data harmonization Ontologies
Video

Annotating data using next generation biobanking ontology (NGBO)

• beginner
Data integration and warehousing Ontology and terminology Standards Ontologies Data Integration data harmonization Standardised vocabulary
Video

FAIR software tools

• beginner
Software engineering FAIR software tools Software
Video

Making cohort data FAIR

• beginner
Data integration and warehousing Data management FAIR data Cohort data Ontologies Standards
Video

Introduction to FAIR principles - Open science through FAIR health data networks: dream or reality?

• beginner
Data management FAIR data Health data Open science
Video

Data Gravity in the Life Sciences: Lessons learned from the HCA and other federated data projects

•• intermediate
Data architecture, analysis and design Cloud computing Data analysis Standards Translational research
Series of videos

CINECA discovery service catalog

•• intermediate
Cohort data Standards federated data analysis Beacon queries
Tutorial

MGnify quick tour

Metagenomics Sequence analysis MGnify Microbiology
Course materials

Single cell RNA-seq analysis using Python
Course materials

Microscopy data analysis: machine learning and the BioImage Archive
e-learning

Structural volume data

Electron microscopy Protein structure analysis Structural biology Structural bioinformatics Segmentation Volume matching
Life Sciences Literature Database

Finding the data behind research publications with Europe PMC

Biomedical Literature Data links databases External links
Life Sciences Literature Database

Discovering scientific evidence using Europe PMC SciLite annotation

Biomedical Literature Annotations Literature search SciLite Protein structure viewer Chemical viewer
Recorded webinar

UniProt COVID-19 website

Proteomics
Recorded webinar

Multi-omics comparative pathway analysis with ReactomeGSA

Omics
Course materials

Managing a Bioinformatics Core Facility: CABANA Virtual Workshop Handbook
Recorded webinar

Annotate your proteins with the UniProt Functional Annotation system UniFire

Proteins Function analysis
e-learning

European Nucleotide Archive: Quick tour

Nucleic acid sequence Nucleotide sequencing data Raw read data Sequencing ENA
e-learning

PDBe: Searching the Protein Data Bank

Protein structure analysis Proteins Structural biology Macromolecular structures PDBe Electron microscopy

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Training coordinator

PhenoMeNal: accessing metabolomics workflows in Galaxy

A common framework for designing portable federated pipelines

How to use Common Workflow Language

Europe PMC API workshop: Part two

MaBoSS: a tool for modelling biological systems

Exploring metabolite metabolism using the Enzyme Portal

GA4GH Passports and ELIXIR AAI

Status Update Code of Conduct: Teaming up & Talking about it

EBI Metagenomics: analysing and exploring metagenomics data

2024 highlights: A year of on-demand training

Useful ontologies for harmonizing cohort data

Applying data standards to the harmonization of COVID-19 datasets from different sources

Annotating data using next generation biobanking ontology (NGBO)

FAIR software tools

Making cohort data FAIR

Introduction to FAIR principles - Open science through FAIR health data networks: dream or reality?

Data Gravity in the Life Sciences: Lessons learned from the HCA and other federated data projects

CINECA discovery service catalog

MGnify quick tour

Single cell RNA-seq analysis using Python

Microscopy data analysis: machine learning and the BioImage Archive

Structural volume data

Finding the data behind research publications with Europe PMC

Discovering scientific evidence using Europe PMC SciLite annotation

UniProt COVID-19 website

Multi-omics comparative pathway analysis with ReactomeGSA

Managing a Bioinformatics Core Facility: CABANA Virtual Workshop Handbook

Annotate your proteins with the UniProt Functional Annotation system UniFire

European Nucleotide Archive: Quick tour

PDBe: Searching the Protein Data Bank

FEBS: In Silico Systems Biology: Network Reconstruction, Analysis and Network-based Modelling

EBI - Joint EBI-Wellcome Trust Proteomics Bioinformatics workshop

Using the Ensembl Genome Browser

Introduction to multi-omics data integration and visualisation

Introduction to metabolomics analysis

Data-driven approaches to understanding dementia

Microscopy data analysis: machine learning and the BioImage Archive

Genome bioinformatics: from short- to long-read sequencing

Structural bioinformatics

Metagenomics bioinformatics at MGnify

Bioinformatics for immunologists

Proteomics bioinformatics

Data science for life scientists

Systems biology: from large datasets to biological insight

Causality in biomedicine: going beyond associations

From sequences to structures: protein characterisation using EMBL-EBI APIs

UniProt

Interpreting the effects of genetic variants on protein structure and function

Managing spatial data: insights from developing the Human Biomolecular Atlas Program (HuBMAP) data portal

Interactive visualisation of spatial transcriptomics data

Mapping tissue remodelling using sequencing-based spatial transcriptomics

Imaging-based spatial transcriptomics: methods, preprocessing, and quality control

Mapping biology in space: a guide to technologies and workflows in spatial transcriptomics

Decoding spatial transcriptomics through sequences, pixels, and bioinformatics

Spatial transcriptomics in action: a case study from human reproductive development

Integrating single-cell and spatial transcriptomics to map the rules of neurological conditions

Single-cell RNA-seq analysis with Python

Introduction to RNA-seq and functional interpretation

Advanced programmatic access to UniProt using Python

Automatic annotation systems in UniProt

CINECA PROJECT

European Bioinformatics Institute (EBI)