ELIXIR UK

ELIXIR UK Node Resources

The UK Node supports the bioinformatics and broader biological research community by providing training and resources that help researchers to find and share data, exchange expertise, and agree on best practices at national, European and international level.

If you have a resource that could help the life sciences community deal with current data challenges it faces please get in contact.

Following a call for resources in 2016 the ELIXIR UK Node currently has resources in 6 strategic areas

Through these prioritised themes ELIXIR-UK contributes to four of the ELIXIR’s platforms: Training, Interoperability and Standards, Data and Tools. The UK resources also reflect and link to the strategic themes of ELIXIR, its Technical Platforms and its Scientific Use Cases/Communities, as well as engaging with a number of key international initiatives and national and international organisations.

Summary of ELIXIR UK Node Resources

Biomedical Atlas Centre

Expression Atlases for mouse embryo (emouseatlas.org), human embryo (hudsen.org), chick (echickatlas.org), pig (www.macrophages.com/pig-atlas) and sheep

Strategic area:
Training
Expression Atlases
Organisations:
Heriot-Watt University
Newcastle University
University of Edinburgh

Bioinformatics Training Program

The Bioinformatics Training Program of the University of Cambridge offers a broad range of undergraduate and postgraduate hands-on training courses focused on bioinformatics and computational biology. These training activities aim at enabling life scientists to effectively handle and interpret biological data.

Strategic area:
Training
Organisations:
University of Cambridge

Birmingham Metabolomics Training Centre

The Birmingham Metabolomics Training Centre offers a wide range of introductory to advanced training courses in metabolomics, including in analytical and computational methods and their application to medicine, microbiology and the environmental sciences. Courses are relevant to academia, industry and government scientists and include face-to-face, hands-on and online training.

Strategic area:
Training
Organisations:
The University of Birmingham

CATH-Gene3D

CATH is a classification of protein structures downloaded from the Protein Data Bank.

Strategic area:
Protein Structure & Function
Organisations:
University College London

Dundee Resource for Sequence Analysis and Structure Prediction

Strategic area:
Protein Structure & Function
Organisations:
University of Dundee

Edinburgh Genomics Advanced Training in Bioinformatics

Edinburgh Genomics Advanced Training in Bioinformatics offers a range of hands-on workshops, focusing on core bioinformatics skills and the analysis of second- and third-generation sequencing data. Workshops are aimed at scientists from academia as well as industry.

Strategic area:
Training
Organisations:
Edinburgh Genomics
The Roslin Institute

ELIXIR TESS

Portal for training material and events.

Strategic area:
Training
Organisations:
The University of Manchester
The University of Oxford - Oxford e-Research Centre
Formal links with external initiatives:
GOBLET

ENSEMBL Farmed and Domesticated Animals

Strategic area:
Agri-data
Organisations:
The Roslin Institute

FAIRsharing

Portal for standards, databases and policies.

Strategic area:
Interoperability & Standards
Organisations:
The University of Oxford - Oxford e-Research Centre

Intermine

InterMine is an open source data warehouse system that enables the integration and analysis of complex biological data through sophisticated web interfaces and web services.

Strategic area:
Interoperability & Standards
Organisations:
University of Cambridge

ISA Tools& Commons

The open source ISA framework and tools help to manage an increasingly diverse set of life science, environmental and biomedical experiments that employing one or a combination of technologies.
Strategic area:
Agri-data
Organisations:
The University of Oxford

IUPHAR/BPS Guide to PHARMACOLOGY

An expert-driven guide to pharmacological targets and the substances that act on them.

Strategic area:
Human Health & Disease
Organisations:
University of Edinburgh

Jalview

Strategic area:
Protein Structure & Function
Organisations:
University of Dundee

Pathogen Host Interactions Database

A web-accessible database that catalogues experimentally verified pathogenicity, virulence and effector genes from fungal, Oomycete and bacterial pathogens, which infect animal, plant, fungal and insect hosts.

Strategic area:
Agri-data
Organisations:
Rothamsted Research

Phyre2

A web server for the prediction of protein 3D structure from sequence incorporating analyses of ligand binding and the effects of missense mutations.

Strategic area: Protein Structure & Function
Organisations:
Imperial College London

Road Mapped Resources

EuPathDB


Strategic area:
Human Health & Disease Agri-data
Organisations:
The University of Liverpool

COPO

COPO is a brokering portal for plant scientists to describe, store and retrieve data more easily, using community standards and public repositories that enable the open sharing of results.

Strategic area:
Agri-data
Organisations:
Earlham Institute
The University of Oxford - Oxford e-Research Centre

Ionomics Hub

Strategic area:
Agri-data
Organisations:
The University of Nottingham

SignaLink

Strategic area:
Human Health & Disease
Organisations:
Earlham Institute

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