Service list

E-CRISP is a computational tool to design and evaluate guide RNAs for use with CRISPR/Cas9. The web application uses fast algorithms to identify target sequences for use with mediated genome editing. E-CRISP analyzes target specificity of the putative designs and assesses their genomic context (e.g. exons, transcripts, CpG islands). The design process incorporates different parameters of how CRISPR constructs can be used in experimental applications, such as knock-out and tagging experiments. E-CRISP can design guide RNAs for genomes of more than 30 organisms.

easyFRAP-web is a versatile web-based tool that assists quantitative and qualitative analysis of fluorescence recovery after photobleaching (FRAP) data

R/Bioconductor package that provides general purpose functionality for the reading, writing, processing and analysis of images. In the context of high-throughput microscopy based cellular assays, EBImage offers tools to transform the images, segment cells and extract quantitative cellular descriptors. Part of the Human Omics Analysis Toolbox

An ontology primarily dedicated to categorising computational tools and data resources

Using BLAST score analysis to identify orthologous genes in large groups of related genomes

Easily interpretable electron density score for individual atoms. 

The ELIXIR-GR Cloud Infrastructure (EG-CI) is a Cloud infrastructure being developed to support a broad spectrum of bioinformatic services provided to the community of life scientists in Greece and other ELIXIR Members.

 An API aiming to enable the search of genomic variants and associated information without jeopardising the privacy of the dataset.

EMPIAR, the Electron Microscopy Public Image Archive, is a public resource for raw, 2D electron microscopy images: it allows users to upload, and download and reprocess the thousands of raw, 2D images used to build a 3D structure.

A computational platform for biological data based on open cloud services.

A Jekyll theme designed to support easy deployment of documentation websites, as well as more complex sites requiring a central tool table and linking towards ELIXIR resources.

This is an OpenStack platform co-located with EMBL-EBI’s services and data resources. Access to the Embassy Cloud is available for researchers outside EMBL if they have a collaboration with staff at EMBL.

The Electron Microscopy Data Bank (EMDB) is a public repository for electron microscopy density maps of macromolecular complexes and subcellular structures. It covers a variety of techniques, including single-particle analysis, electron tomography, and electron (2D) crystallography.

Tools to submit sequencing data to the European Nucleotide Archive (ENA). The tools feature a single-step submission process, a graphical user interface, tabular-formatted metadata and the possibility to remove human reads prior to submission.

EnrichedHeatmaps is an R package which visualizes the enrichment of genomic signals on specific target region

Produces and maintains automatic and manually curated annotation on eukaryotic genomes. It is integrated with important molecular resources, for example UniProt, and can be accessed programmatically or through a web browser.

Provides annotated genomes of farmed and domesticated animals in an easily viewable format via the Ensembl system.

Provides access to genome-scale data from bacteria, protists, fungi, plants and invertebrate metazoa, through a unified set of interactive and programmatic interfaces based on the Ensembl software platform.

Enterotypes are densely populated regions in a high-dimensional space of microbiome community composition, by which human individuals can be stratified. Computational methods to detect and characterise enterotypes in any dataset, either to reproduce previous reports or determine enterotypes in new studies, are provided and explained. Part of the Microbiome Analysis Toolbox. 

A Python framework for the analysis and visualization of trees.

A web tool for easy construction and quick testing of kinetic models of enzyme catalyzed reactions. Automatic assembly and calibration of models of enzymatic reactions based on ordinary differential equations.

ENZYME is a repository of information on enzyme nomenclature based on the recommendations of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (NC-IUBMB). ENZYME describes each type of characterized enzyme for which an EC (Enzyme Commission) number has been provided.

EnzymeMiner identifies putative members of enzyme families or subfamilies and facilitates the selection of promising targets for experimental characterization. Two key selection criteria are (i) the predicted solubility and (ii) the sequence identities visualised using an interactive sequence similarity network. The search query can be a sequence from the Swiss-Prot database or a custom sequence with a custom description of essential residues. The output is an interactive selection table containing annotated identified sequences.

An annotated non-redundant collection of eukaryotic POL II promoters, for which the transcription start site has been determined experimentally. Pointers to positions in nucleotide sequence entries provide access to promoter sequences. 

Online platform for comparing methylation data

Secure cloud for handling sensitive data 

Efficient detection of protein disorder: web server and tool for protein region detection which are thought to contain no structural content.

European Search Catalogue for Plant Genetic Resources, information about 1.9 million accessions of crop plants and their wild relatives, preserved ex situ by almost 400 institutes.

For analysis of high-throughput sequencing incorporating many tools, training, literature and guides