Table 2

Description of fold recognition methods used by MetaDisorder
Method Short description Availability Ref.
PSI-BLAST Position-Specific Iterated BLAST uses position-specific scoring matrices derived during the search of the nr database local installation [37]
FFAS Profile-profile alignment and fold-recognition algorithm for fold and function assignment local installation [35]
mGenThreader The method combines profile-profile alignments with secondary-structure specific gap-penalties, classic pair- and solvation potentials using a linear combination optimized with a regression SVM model local installation [36]
HHsearch Generalizes the alignment of protein sequences with a profile hidden Markov model (HMM) to the case of pairwise alignment of profile HMMs local installation [34]
PCONS A neural-network-based consensus predictor local installation [39]
PHYRE An algorithm that uses profile-profile and secondary structure matching algorithm web service [38]

Kozlowski and Bujnicki

Kozlowski and Bujnicki BMC Bioinformatics 2012 13:111   doi:10.1186/1471-2105-13-111

Open Data