Antimicrobial Peptide Database (AMPed)

AMPed consolidates and normalizes antimicrobial peptide (AMP) data to provide an annotated, queryable collection for correlating peptide entries across UniProt, NCBI, EBI, and KEGG.

Key Features:

• Centralized repository: Consolidates AMP entries including sequence sources, 3D structures, and target organisms into a single dataset.
• Data normalization and annotation: Applies uniform annotation across datasets to enable correlation of identical proteins or peptides from different sources.
• Source integration: Aggregates records from UniProt, NCBI, EBI, and KEGG.
• Size filter: Focuses on proteins with less than 100 residues to target short peptides.
• Annotated, queryable dataset: Produces a normalized, annotated collection that supports efficient queries across entries.

Scientific Applications:

• Cross-database peptide correlation: Enables identification and correlation of identical peptide or protein entries across UniProt, NCBI, EBI, and KEGG.
• Structural and organismal analysis of AMPs: Supports analysis of 3D structures and associations with target organisms for peptides under 100 residues.
• Data-driven retrieval for AMP research: Facilitates efficient retrieval of annotated AMP data for downstream comparative and functional studies.

Methodology:

Data are aggregated from UniProt, NCBI, EBI, and KEGG; entries are filtered to proteins with less than 100 residues and undergo data normalization and annotation to produce an integrated, queryable dataset.