EB-eye

EB-eye provides unified search and retrieval of heterogeneous biological data hosted by the European Bioinformatics Institute (EMBL-EBI), enabling researchers to locate nucleotide and protein sequences, structural data, gene-expression experiments, binary molecular interactions, reaction maps, pathway models, functional classifications, biological ontologies, literature libraries, and associated intellectual property.

Key Features:

• Repository coverage: Indexed coverage of more than 62 distinct EMBL-EBI datasets encompassing over 400 million entries.
• Supported data types: Supports nucleotide and protein sequences at genomic and proteomic levels, structural data from small chemicals to complex macromolecular assemblies, gene-expression experiments, binary molecular interactions, reaction maps, pathway models, functional classifications, biological ontologies, and literature libraries including intellectual property records.
• Unified search and retrieval: Provides uniform search and retrieval across heterogeneous EMBL-EBI datasets.
• Programmatic access: Exposes a SOAP Web Services interface for programmatic queries and integration into computational workflows.
• Search functionality: Implements search and retrieval functionalities over large biological data collections to support dataset querying.

Scientific Applications:

• Genomics and proteomics: Locate and retrieve nucleotide and protein sequence data for genomics and proteomics analyses.
• Structural biology: Retrieve structural data for small chemicals and macromolecular assemblies to support structural biology studies.
• Expression and interaction analysis: Access gene-expression experiments and binary molecular interaction data for functional and interaction analyses.
• Systems and pathway analysis: Obtain reaction maps, pathway models, and functional classifications for systems biology and pathway modeling.
• Annotation and literature mining: Query biological ontologies, literature libraries, and intellectual property resources for annotation and literature mining.
• Computational workflows: Integrate search results into analytical pipelines and workflows via the SOAP Web Services interface for downstream computational analyses.

Methodology:

Operates as a search engine that performs search and retrieval across EMBL-EBI datasets and provides programmatic access via a SOAP Web Services interface.