AptaDB

AptaDB aggregates experimentally validated aptamer sequences, aptamer–target interaction data, structural details, and binding affinity constants from SELEX-based screenings and curated sources to support aptamer discovery, rational design, and computational analyses.

Key Features:

• Comprehensive Data Integration: Integrates experimentally validated aptamer–target interaction information, detailed aptamer property information, structural details of aptamers, target-specific information, experimental activity metrics, and algorithmically calculated similar aptamers.
• Extensive Data Collection: Hosts 1,350 experimentally validated aptamer–target interactions, over 1,230 binding affinity constants, and more than 1,293 unique aptamer sequences.
• Analytical Support for Design and Reuse: Provides datasets that support rational design of new aptamers, reuse of existing aptamers, and development of computational methods for aptamer discovery.
• Unique Data Categories: Organizes data into distinct components covering interaction details, aptamer properties, structural information, target information, activity metrics, and computed similarity relationships.
• Continuous Updates: Maintains and expands the dataset to incorporate newly reported aptamer research.

Scientific Applications:

• Rational Design of Aptamers: Supplies sequence, structural, and affinity data to inform rational design and optimization of aptamers.
• Screening and Candidate Selection: Enables identification and comparison of candidate aptamers for therapeutic and diagnostic development.
• Development and Benchmarking of Computational Methods: Provides curated datasets for training, testing, and benchmarking algorithms for aptamer prediction, affinity estimation, and similarity analysis.

Methodology:

Compilation of experimentally validated data from SELEX-based screenings and other curated sources, and algorithmic calculation of similar aptamers.