Software
Prediction servers
Most of the following prediction servers had been developed as part of the Characterization and Prediction of Macromolecular (Protein, DNA, RNA) Sequence-Structure-Function-Interaction Relationships project.
Protein-protein interface prediction
- PS-HomPPI: Partner-Specific Protein-Protein Interface Residue Predictor
- NPS-HomPPI: Non-Partner-Specific Protein-Protein Interface Residue Predictor
- PrISE : Prediction of protein-protein Interface residues using Structural Elements
Protein-protein docking
Protein-RNA interface prediction
- RNABindRPlus: A server for predicting RNA-binding residues in proteins using a combination of sequence-homology and machine learning methods
- RNABindR v2.0: A server for predicting RNA-binding residues in proteins
- FastRNABindR: A server for large-scale prediction of protein-RNA interface residues
Immunoinformatics servers
- BCPREDS: B-cell epitope prediction server
- MHCMIR: Predicting peptide-MHC-II binding affinity
- BacGen: Predicting protective bacterial antigens
Biomolecular network analysis
Others
Database servers
Software
- INDUS - INtelligent Data Understanding System
- EpiT: Epitopes Toolkit
- Gennotate: Genome Annotation Toolkit
- iPref-R: A Qualitative Preference Reasoner
- AVT-DTL -- software for learning decision tree classifiers from attribute value taxonomies and data and some sample data sets and attribute value taxonomies are available for download
- AVT-NBL -- software for learning decision naive bayes classifiers from attribute value taxonomies and data and some sample data sets and attribute value taxonomies are available for download.