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Table 1 Bioinformatic predictors of HIV-1 coreceptor use based on V3 loop sequence.

From: Clinical significance of HIV-1 coreceptor usage

Predictor URL Method Ref
R5/X4 and NSI/SI network http://cancer.med.unc.edu/swanstromlab/resources.html Neural network Resch et al, 2001
WebPSSM http://indra.mullins.microbiol.washington.edu/webpssm/
http://fortinbras.us/cgi-bin/fssm/fssm.pl
PSSM Jensen et al, 2003
WetCat http://genomiac2.ucsd.edu:8080/wetcat/v3.html SVM Pillai et al, 2003
Geno2pheno http://coreceptor.bioinf.mpi-inf.mpg.de/ SVM Sing et al, 2007
V3SD The source code for prediction and analysis is available upon request. SVM Sander et al, 2007
R5/X4-pred http://yjxy.ujs.edu.cn/R5-X4pred.rar Random forests Xu et al, 2007
ANN Not available Neural network Lamers et al, 2008
hiv-dskernel http://genome.ulaval.ca/hiv-dskernel SVM Boisvert et al, 2008