Service list

Online access to tools and databases related to miRNAs binding site predictions, RNA Binding protein binding sites, circular RNAs, CLIP data analysis and transcriptome analysis

Beyondcell is a computational methodology for identifying tumour cell subpopulations with distinct drug responses in single-cell RNA-seq data and proposing cancer-specific treatments.

Database to retrieve and compare gene expression patterns between animal species. 

The Bielefeld Bioinformatics Server (BiBiServ) hosts bioinformatics tools from the Bielefeld groups and close collaborators.             

BIIGLE is a web service for the efficient and rapid annotation of still images and videos. 

Web portal for tools registry and discovery, incorporating tool benchmarking and service monitoring information and the use of EDAM for precise scientific tool description. 

BiocompR is an R package that improves visualisations commonly used in biology and genomics for data comparison and dataset exploration.

Build, test and convert Cloud and HPC software into Linux containers.

This bioconductor authoring tool links the journal’s manuscript management system with the Bioconductor nightly build system, thus enabling “continuous Integration”, automated quality control and guaranteed workflow functionality even as underlying resources and tools evolve. A package and tutorial publication are underway, and we have actively helped several authors from the community with workflow authoring.

Biobb (BioExcel building blocks) are Python building blocks wrapping popular computational biomolecular tools.

The BioImage Archive is a free, publicly available online resource which stores and distributes biological images. It accepts submissions of data from any imaging modality, as long as the data are either associated with a peer-reviewed publication, or of value beyond a single experiment.

 BIII Bio Image informatics Index (www.biii.eu) is a knowledge database of software tools, test image databases and training materials for bio image analysis. Software tools are organized as full protocol of analysis (workflow), specific brick (component) to construct a workflow, or software platform or library (collection).  They are described using Edam Bio Imaging, which is iteratively defined using this website. All entries are exposed following FAIR principles and accessible for other usage with  (ODC-By) v1.0 license.

Either as a cooperation or consultancy service.

Provides an R interface to BioMart services. In particular this is the most widely used programmatic access route to query EMBL-EBI’s Ensembl database.

The BioMedIT Network establishes a coordinated nationwide network of secure infrastructures to support computational biomedical research and clinical bioinformatics. Built on the centers of expertise established at partner universities (regional nodes), this network is managed by the Personalized Health Informatics Group, a group of the SIB Swiss Institute for Bioinformatics. 

The BioModels Database is a repository of computational models of biological processes. Models described from literature are manually curated and enriched with cross-references.

A biomarker database provides structured information on all biomarker candidates published in PubMed articles.

Website offering a comprehensive framework for constructing Biophysical Proteomes.

BioSamples stores and supplies descriptions and metadata about biological samples used in research and development by academia and industry. 

The BioStudies database holds descriptions of biological studies, links to data from these studies in other databases at EMBL-EBI or outside, as well as data that do not fit in the structured archives at EMBL-EBI.

Knowledge integration platform for literature mining and concept discovery

BioTranslator enables functional interpretation of genomic experiments through pathways analysis with a variety of biomedical ontologies, regulatory genes prioritization and protein network visualization.

The Birmingham Metabolomics Training Centre provides training to the metabolomics community in both analytical and computational methods, via face-to-face and online workshops, and from introductory to advanced levels.

Primer design and ePCR method for bisulfite treated and untreated DNA sequences (cDNA, genomic)

An interactive literature‐based biomedical discovery support system

A comprehensive enzyme information system. It is the world’s largest and most widely information system on all aspects of enzymes, including function, structure, mutants, properties like stability, purification. Data download is possible as an integrated text filed or via SOAP.

Mouse brain response to low-dose ionizing radiation (emerging service) 

A framework to map identifiers between various databases.

A web server integrating multiple tools for prediction of protein subcellular localization and topological features

BUSCO provides quantitative measures for the assessment of genome assembly and annotation completeness based on evolutionarily informed expectations of gene content.