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. Author manuscript; available in PMC: 2012 Feb 7.
Published in final edited form as: HIV Seq Compend. 2001;2001:1–51.

Table 9.

Algorithms for Interpreting HIV-1 Protease and RT Sequences

Algorithm Availability Description
Resistance Collaborative Group (RCG) (DeGruttola et al., 2000) Public Table of rules developed for a standardized re-analysis of eight published studies linking drug resistance mutations and clinical outcome. Not intended for clinical use.
HIV RT and Protease Sequence Database (Shafer et al., 2000a) Public Method used at Stanford University Hospital Diagnostic Virology Laboratory. Mutations are assigned drug penalties. Drug penalties are added and drugs are assigned an inferred level of resistance. Drug penalties are hyperlinked to primary data linking mutation and drug. Program can be found at http://hivdb.stanford.edu.
French National Agency for AIDS Research (ANRS) (Rousseau et al., 2001) Public Table of rules listing mutations conferring genotypic resistance or possible genotypic resistance to anti-HIV drugs.
Retrogram™ (Virology Networks) Proprietary Drug-based rules. Updated regularly by an expert panel
GuideLines™ (Visible Genetics) Proprietary Drug-based rules. Updated regularly by an expert panel.
VirtualPhenotype™ (Virco; Mechelin, Belgium) (Verbiest, et al., 2000) Proprietary Pattern matching algorithm that uses a large genotype-phenotype correlative database to infer phenotypic properties based on sequence data..