SeqDepot

SeqDepot integrates primary sequences with predicted feature data to consolidate sequence and annotation information for genomic, proteomic, and comparative analyses.

Key Features:

• Extensive Data Repository: Hosts over 28.5 million primary sequences and more than 300 million associated predicted features.
• Sequence–Feature Integration: Associates known primary sequences with their predicted features to produce integrated sequence records.
• RESTful API: Exposes a RESTful interface supporting retrieval of specific data subsets, bulk queries, and generation of visualization-ready outputs.
• Identifier-Based Search: Supports searches by MD5 digests and external database identifiers.
• Scripting Integration: Provides Perl and Python scripts for incorporation into local processing pipelines.

Scientific Applications:

• Genomic studies: Enables retrieval and analysis of large-scale sequence and annotation datasets for genome-centered investigations.
• Protein function prediction: Facilitates aggregation of sequence data and predicted features to support protein annotation and function inference.
• Comparative genomics: Supports comparative analyses by providing integrated sequence and feature datasets across many entries.

Methodology:

Integration of primary sequences with predicted features, programmatic access via a RESTful API, and provision of Perl and Python scripts for pipeline integration.