This webinar will introduce the EBI Search service. EBI Search is a text search engine that provides easy and uniform access to the biological data resources hosted at EMBL-EBI. It provides up-to-date search results across all of the stored datasets, as well as simple intra-domain navigation via internal cross-references.

In addition to the web front-end, there is a RESTful API interface, allowing the search engine to be queried programmatically. The webinar will illustrate both the web application, and take a brief look at the RESTful interface.

Who is this course for?
This webinar is aimed at anyone who may be interested in exploring the data resources available across the EMBL-EBI using EBI Search, either through the web front-end or programmatically.

Outcomes
By the end of the webinar you will be able to:

Describe the services provided by EBI Search
Use the EBI Search front end to explore the data resources
Navigate the EBI Search results
Identify when the back-end API may be useful for your applications

Bioinformatics brings together concepts from biology, computer science and mathematics to build resources for analysing complex and big data in life sciences. This online tutorial will help you explore some concepts and resources in bioinformatics with videos presented by experts from EMBL-EBI and worldwide.

By the end of the course you will be able to:
Identify resources related to your bioinformatics concepts of interest
Know where to find out more about EMBL-EBI resources
List some of the tools and resources available at EMBL-EBI

Rfam is a database of RNA families that currently contains almost 4,000 families. Together with the Infernal software, Rfam is commonly used to annotate non-coding RNAs in newly sequenced genomes. In this webinar, we will give an overview of the data available in Rfam and give a live demo of annotating a genome with non-coding RNAs using Rfam and the Infernal software.

We will be joined by a guest speaker, Prof Sam Griffiths-Jones (University of Manchester), who founded Rfam in 2002 and is now responsible for miRBase, the microRNA registry. We will discuss the ongoing efforts to synchronise the microRNA families between Rfam and miRBase.

Who is this course for?
This webinar is suitable for any student or researcher in life sciences who is interested in learning about RNA families and the EMBL-EBI resource Rfam. No prior knowledge of bioinformatics is required, but an undergraduate level knowledge of biology would be useful.

Outcomes
By the end of the webinar you will be able to:

Navigate the Rfam website and access RNA family information
Annotate genomes with non-coding RNA families using Rfam and Infernal

UniProt provides the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequence and functional information.

This webinar will guide you through ways in which students and researchers at all career stages may take a structured approach to access the data in the UniProtKB and Proteomes sections of the UniProt protein function database.

The webinar will discuss the types of data that can be accessed, and using sequence analysis tools, how this data can be analysed to answer biological questions. We will demonstrate how to find the function of a protein, how the protein components of a pathway may be identified, features of proteins of interest can be compared, similar sections of sequence can be sought in other species and how whole data sets containing all the proteins expressed in an organism can be obtained. By accessing sequence, structural and functional data through UniProt, we want researchers to be part of data’s biological journey and support further work and adventures along the way!

Who is this course for?
This webinar is aimed at students or early researchers beginning to use bioinformatics resources in their studies/research who wish to learn more about UniProt. No prior knowledge of bioinformatics is required, but undergraduate level knowledge of biology would be useful.

Outcomes
By the end of the webinar you will be able to:

Describe what UniProt can be used for
Search the UniProt website and analyse data

This webinar gives an introduction to the information required to effectively interpret ligand binding sites in protein structures. It will highlight tools available at the Protein Data Bank in Europe (PDBe) and PDBe Knowledge Base (PDBe-KB) to analyse ligand binding pockets and interactions. It will also highlight how this information can be used for the design of new inhibitors, through a specific case study.

Who is this course for?
Researchers with a background in protein biology or biochemistry, with a reasonable knowledge of the basic concept of structural biology.

Outcomes
By the end of the webinar you will be able to:

Explore and access ligand binding site data at PDBe and PDBe-KB
Identify PDBe and PDBe-KB tools to support understanding of ligand binding sites
Apply knowledge of ligand binding sites to own research

ChEMBL is a widely-used database of bioactivity data that links drug-like compounds to their biological targets and has applications in drug discovery. This webinar will provide an overview of the ChEMBL web interface, data types within ChEMBL and how ChEMBL can be used to answer questions relevant to medicinal chemistry and drug discovery.

Who is this course for?
This webinar is aimed at early career researchers in the biological and medicinal chemistry sciences as well as other researchers interested in exploring drug-target data.

Outcomes
By the end of the webinar you will be able to:

Extract drug-target data from the ChEMBL interface
Identify the applications of ChEMBL in medicinal chemistry and drug discovery

Ensembl is a genome browser that provides a single point access to annotated gene and genomes. This webinar will provide a brief overview to the Ensembl browser and demonstrate how you can access information about genes or genomes of your interest. We will also showcase the data types and tools available at Ensembl which can help your research.

Who is this course for?
This webinar is suitable for any researcher in life sciences who is interested in studying genes and genomes. No prior knowledge of bioinformatics is required, but an undergraduate level knowledge of biology would be useful.

Outcomes
By the end of the webinar you will be able to:

Explore and access the data types available at Ensembl
Describe the application of Ensembl browser
Identify where to find help in Ensembl

The Open Targets Platform - https://platform.opentargets.org/ - is a comprehensive research tool that supports systematic identification and prioritisation of potential therapeutic drug targets.‌ By integrating publicly available datasets along with data generated by the Open Targets consortium, the Platform builds and scores target-disease associations. Users can also explore relevant annotation information about targets, diseases, phenotypes, and drugs, as well as their most relevant relationships.

This webinar will provide an overview of the Open Targets Platform which is a freely available resource that is actively maintained with bi-monthly data updates. All data is available through an intuitive user interface, a GraphQL API, and data downloads. Likewise, the pipeline and infrastructure codebases are open-source and can be used to create a self-hosted private instance of the Platform with custom data.

Who is this course for?
This webinar is suitable for lab-based and computational research scientists, graduate students, and post-doctoral research fellows working in early stage drug discovery.

Outcomes
By the end of the webinar you will be able to:

Identify the types of ‘omics data integrated into the Platform
Explore target-disease associations and supporting evidence available in the Platform
List different ways to access the Platform data

During this webinar, we will give you an introduction to molecular interactions and how to find these through the molecular interaction database IntAct. We will show you examples of how you can search for interaction data, how to create molecular interaction networks using our network viewer based on Cytoscape.js and how to download this data for further analysis.

We will also have a quick look at two other resources, PSICQUIC and IMEx, that integrate molecular interactions from several sources.

Who is this course for?
This webinar is aimed at students or early researchers beginning to use bioinformatics resources in their studies/research who wish to learn more about molecular interactions and IntAct. No prior knowledge of bioinformatics is required, but undergraduate level knowledge of biology would be useful.

Outcomes
By the end of the webinar you will be able to:

Explain what molecular interactions are
Describe what IntAct can be used for
Search for interaction data

In this webinar we will discuss how to perform comparative multi-omics pathway analyses using the ReactomeGSA pathway analysis system. We will be comparing independent studies that use different 'omics approaches, as well as different 'omics measurements from the same study. Additionally, we will be looking at simple to use methods to integrate public datasets into one's own analysis. Finally, we will use the ReactomeGSA R package to improve the annotations of single-cell RNAseq data. During the webinar we will use Reactome's web interface as well as the ReactomeGSA Bioconductor R package.

Who is this course for?
This webinar is aimed at students or early researchers beginning to use bioinformatics resources in their studies/research who wish to learn more about multi-omics pathway analysis and Reactome.

Outcomes
By the end of the webinar you will be able to:

Discuss how to perform comparative multi-omics pathway analyses using ReactomeGSA pathway analysis
Describe methods to integrate public datasets into one's own analysis
Apply ReactomeGSA to perform multiomics comparative pathway analyses

The goal of the BioStudies database is to facilitate transparency and reproducibility of research by aggregating all the outputs of a study (a ‘data package’) in a single place. A data package may include links to parts of data deposited into specialised community databases at EMBL-EBI and elsewhere, as well as data that have no other natural home such as supplemental data.

In this webinar we will look at a range of examples for data submission and access, including large image datasets.

Who is this course for?
This webinar is suitable for any life science researchers who are interested in open science and FAIR data.

Outcomes
By the end of the webinar you will be able to:

Explore the BioStudies database
Identify how to access or submit biological datasets to the BioStudies

This webinar will give a brief introduction to the UniProt and InterPro websites and highlight resources available that proteomic scientists or other users with protein datasets may find useful to analyse their data. This will encompass searching by protein sequence, identifying protein peptides, and retrieving sequence-specific features and functional information both curated and predicted.

The UniProt database aims to provide a high quality, comprehensive, publicly available protein database, annotated by expert curators. It contains detailed information on protein function, interactions, pathways, protein sequences and isoforms, disease variants and post-translational modifications.

InterPro is a database that helps users to understand the possible functions of protein sequences by identifying what family it belongs to or what domains and motifs it contains. InterPro provides the world’s most comprehensive predictions by combining predictions from 13 member databases.

Both databases are freely available resources that are actively maintained with bi-monthly data updates, additionally all data is available through intuitive user interfaces, APIs, and data downloads.

Who is this course for?
This webinar is suitable for both computational and wet-lab researchers in life sciences who are interested in studying proteins and proteins functions. No prior knowledge of bioinformatics is required, but an undergraduate level knowledge of biology would be useful.

Outcomes
By the end of the webinar you will be able to:

Perform a sequence search on the UniProt and InterPro websites
Use the tools provided by the UniProt and InterPro websites to analyse your protein of interest
List different ways to access the InterPro data

This webinar aims to provide an introduction to basic concepts in sequence similarity search with a focus on the similarity search tools and databases provided by EMBL-EBI. In this webinar, we will also provide useful tips on which tools and databases to use, and explore some examples of use cases using BLAST.

Who is this course for?
Anyone interested in detecting homologous sequences. No previous bioinformatics experience is required, but an undergraduate-level knowledge of biology would be recommended.

Outcomes
By the end of the webinar you will be able to:

Describe what sequence similarity searching is and why it is important
Identify sequence search tools and biological databases at EMBL-EBI
Perform BLAST sequence searches against different EMBL-EBI databases
Explore different input formats, different parameters options, and how to interpret the results

The aim of this webinar is to introduce you to the principles of how biological data is archived, curated, maintained and updated by expert biocurators and how you can contribute.

Who is this course for?
This webinar is aimed at students or early researchers, biocurators and those who are interested in a biocuration career.

Outcomes
By the end of the webinar you will be able to:

Explain how life science databases are maintained
Discover how to submit your data in the best possible way
Explore how to collaborate with the database teams to improve science provision

The EMBL-EBI is the home of the world's most comprehensive range of freely available molecular databases and resources. Our resources help researchers share and analyse data and perform complex queries in many different ways. Join us for a tour of the core data resources at EMBL-EBI.

Who is this course for?
This webinar is for anyone with an interest in biology or bioinformatics. No prior skills are required.

Outcomes
By the end of the webinar you will be able to:

Describe what kind of data is accessible through EMBL-EBI's databases and resources
Know where to go to look for more information

WormBase ParaSite is a sub-portal of the main WormBase website and is designed for researchers working on parasitic worm genomics. It provides genome sequence, genome browsers, semi-automatic annotation and comparative genomics data for approximately one hundred species, plus a number of other tools.

In this webinar we will cover:

Introduction to WormBase ParaSite data
Accessing data via the species and gene pages
Using the genome browsers
Data mining with BioMart
Who is this course for?
This webinar is for researchers engaged in parasitic worm (flatworm and nematode) genomics. No prior knowledge of bioinformatics is required, but an undergraduate level understanding of biology and parasitology would be useful.

This course will take you on a journey through time and space to provide a taste of the free resources and data that EMBL-EBI has on offer. Join this tour filled with challenges to explore and learn about various databases and resources.

By the end of the course you will be able to:
Describe the application of a number of EMBL-EBI resources
Find the right EMBL-EBI resource
Retrieve data from bioinformatic resources
Identify where to find more information about bioinformatic tools

This resource is a video abstract of a research paper created by Research Square on behalf of its authors. It provides a synopsis that's easy to understand, and can be used to introduce the topics it covers to students, researchers, and the general public. The video's transcript is also provided in full, with a portion provided below for preview:

"Chloroplast protein of 12 kDa (CP12) participates in the Calvin Benson Bassham (CBB) cycle and many other processes in higher plants, microalgae, and cyanobacteria. The CP12-encoding gene is conserved in many diatoms, but CBB cycle regulation differs between diatoms and other photosynthetic organisms, and CP12 has not been characterized in these ecologically important and evolutionarily complex microalgae. A recent study addressed this knowledge gap by characterizing CP12 in the marine diatom Thalassiosira pseudonana. Using a variety of techniques, researchers found that this CP12 is expressed under both light and dark conditions and throughout growth and that it exhibits some features of intrinsically disordered proteins, like CP12 proteins in other organisms. The protein is an elongated cylinder with kinks and numerous unstable dynamic α-helices. In addition, it exists as a dimer, in contrast to previously characterized monomeric CP12s..."

The rest of the transcript, along with a link to the research itself, is available on the resource itself.