Published in BMC Res Notes on March 31, 2011
A simple structure-based model for the prediction of HIV-1 co-receptor tropism. BioData Min (2014) 0.94
Interpol: An R package for preprocessing of protein sequences. BioData Min (2011) 0.92
A multifaceted analysis of HIV-1 protease multidrug resistance phenotypes. BMC Bioinformatics (2011) 0.89
Improved Bevirimat resistance prediction by combination of structural and sequence-based classifiers. BioData Min (2011) 0.88
Automated prediction of HIV drug resistance from genotype data. BMC Bioinformatics (2016) 0.78
SHIVA - a web application for drug resistance and tropism testing in HIV. BMC Bioinformatics (2016) 0.77
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Conditional variable importance for random forests. BMC Bioinformatics (2008) 6.07
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Prediction of protein cellular attributes using pseudo-amino acid composition. Proteins (2001) 4.64
Improved coreceptor usage prediction and genotypic monitoring of R5-to-X4 transition by motif analysis of human immunodeficiency virus type 1 env V3 loop sequences. J Virol (2003) 4.56
Genotypic predictors of human immunodeficiency virus type 1 drug resistance. Proc Natl Acad Sci U S A (2006) 3.76
Diversity and complexity of HIV-1 drug resistance: a bioinformatics approach to predicting phenotype from genotype. Proc Natl Acad Sci U S A (2002) 3.46
Improved success of phenotype prediction of the human immunodeficiency virus type 1 from envelope variable loop 3 sequence using neural networks. Virology (2001) 2.74
Genotypic and phenotypic characterization of human immunodeficiency virus type 1 variants isolated from patients treated with the protease inhibitor nelfinavir. Antimicrob Agents Chemother (1998) 2.67
Geno2pheno: Estimating phenotypic drug resistance from HIV-1 genotypes. Nucleic Acids Res (2003) 2.37
Using support vector machine combined with auto covariance to predict protein-protein interactions from protein sequences. Nucleic Acids Res (2008) 2.29
Prediction of protein folding class using global description of amino acid sequence. Proc Natl Acad Sci U S A (1995) 2.00
Evolution of the MIP family of integral membrane transport proteins. Mol Microbiol (1991) 1.83
Identification of I50L as the signature atazanavir (ATV)-resistance mutation in treatment-naive HIV-1-infected patients receiving ATV-containing regimens. J Infect Dis (2004) 1.54
POIMs: positional oligomer importance matrices--understanding support vector machine-based signal detectors. Bioinformatics (2008) 1.51
Genetic correlates of efavirenz hypersusceptibility. AIDS (2004) 1.50
Enhanced prediction of lopinavir resistance from genotype by use of artificial neural networks. J Infect Dis (2003) 1.41
Simple linear model provides highly accurate genotypic predictions of HIV-1 drug resistance. Antivir Ther (2004) 1.41
Predicting Bevirimat resistance of HIV-1 from genotype. BMC Bioinformatics (2010) 1.30
Prediction of co-receptor usage of HIV-1 from genotype. PLoS Comput Biol (2010) 1.29
A discriminative method for protein remote homology detection and fold recognition combining Top-n-grams and latent semantic analysis. BMC Bioinformatics (2008) 1.25
Ninety-nine is not enough: molecular characterization of inhibitor-resistant human immunodeficiency virus type 1 protease mutants with insertions in the flap region. J Virol (2008) 1.08
Predicting drug resistance of the HIV-1 protease using molecular interaction energy components. Proteins (2009) 1.07
Comparison of classifier fusion methods for predicting response to anti HIV-1 therapy. PLoS One (2008) 1.07
HIV-1 coreceptor usage prediction without multiple alignments: an application of string kernels. Retrovirology (2008) 1.05
Pairwise and higher-order correlations among drug-resistance mutations in HIV-1 subtype B protease. BMC Bioinformatics (2009) 1.02
A computational approach for the identification of small GTPases based on preprocessed amino acid sequences. Technol Cancer Res Treat (2009) 1.00
Prediction of protein binding sites in protein structures using hidden Markov support vector machine. BMC Bioinformatics (2009) 0.98
Efficacy of different protein descriptors in predicting protein functional families. BMC Bioinformatics (2007) 0.95
Using ensemble of classifiers for predicting HIV protease cleavage sites in proteins. Amino Acids (2008) 0.91
A Rough Set-Based Model of HIV-1 Reverse Transcriptase Resistome. Bioinform Biol Insights (2009) 0.90
Prediction of phenotypic susceptibility to antiretroviral drugs using physiochemical properties of the primary enzymatic structure combined with artificial neural networks. HIV Med (2008) 0.90
Neural network prediction of the HIV-1 protease cleavage sites. J Theor Biol (1995) 0.89
Using genetic algorithms to select most predictive protein features. Proteins (2009) 0.88
Using hydropathy features for function prediction of membrane proteins. Mol Membr Biol (2007) 0.79
Diversity and complexity of HIV-1 drug resistance: a bioinformatics approach to predicting phenotype from genotype. Proc Natl Acad Sci U S A (2002) 3.46
Shift of HIV tropism in stem-cell transplantation with CCR5 Delta32 mutation. N Engl J Med (2014) 2.39
Geno2pheno: Estimating phenotypic drug resistance from HIV-1 genotypes. Nucleic Acids Res (2003) 2.37
Human Immunodeficiency Virus Gag and protease: partners in resistance. Retrovirology (2012) 1.83
Learning multiple evolutionary pathways from cross-sectional data. J Comput Biol (2005) 1.74
Role of hepatitis B virus genetic barrier in drug-resistance and immune-escape development. Dig Liver Dis (2011) 1.57
Mtreemix: a software package for learning and using mixture models of mutagenetic trees. Bioinformatics (2005) 1.41
Compensatory mutations at the HIV cleavage sites p7/p1 and p1/p6-gag in therapy-naive and therapy-experienced patients. Antivir Ther (2006) 1.37
Backbone rigidity and static presentation of guanidinium groups increases cellular uptake of arginine-rich cell-penetrating peptides. Nat Commun (2011) 1.30
Predicting Bevirimat resistance of HIV-1 from genotype. BMC Bioinformatics (2010) 1.30
Prediction of co-receptor usage of HIV-1 from genotype. PLoS Comput Biol (2010) 1.29
Computational methods for the design of effective therapies against drug resistant HIV strains. Bioinformatics (2005) 1.27
Detection of highly prevalent hepatitis B virus coinfection among HIV-seropositive persons in Ghana. J Clin Microbiol (2010) 1.20
Structures of the Common Cyclodextrins and Their Larger Analogues-Beyond the Doughnut. Chem Rev (1998) 1.20
Estimating HIV evolutionary pathways and the genetic barrier to drug resistance. J Infect Dis (2005) 1.19
Characterization of methicillin-resistant Staphylococcus spp. carrying the mecC gene, isolated from wildlife. J Antimicrob Chemother (2013) 1.17
Tenofovir resistance and resensitization. Antimicrob Agents Chemother (2003) 1.10
Prevalence of minor variants of HIV strains at reverse transcriptase position 103 in therapy-naïve patients and their impact on the virological failure. J Clin Virol (2009) 1.06
Methods for optimizing antiviral combination therapies. Bioinformatics (2003) 1.02
Sonic hedgehog shedding results in functional activation of the solubilized protein. Dev Cell (2011) 1.02
CD8+ T-cell response promotes evolution of hepatitis C virus nonstructural proteins. Gastroenterology (2011) 1.01
Functional conservation of HIV-1 Gag: implications for rational drug design. Retrovirology (2013) 1.01
Screening for disulfide bonds in proteins by MALDI in-source decay and LIFT-TOF/TOF-MS. Anal Chem (2002) 1.00
The amino acid substitutions rtP177G and rtF249A in the reverse transcriptase domain of hepatitis B virus polymerase reduce the susceptibility to tenofovir. Antiviral Res (2012) 1.00
Rpd3-dependent boundary formation at telomeres by removal of Sir2 substrate. Proc Natl Acad Sci U S A (2010) 0.99
Hepatitis B virus reverse transcriptase sequence variant database for sequence analysis and mutation discovery. Antiviral Res (2010) 0.99
Novel HBsAg markers tightly correlate with occult HBV infection and strongly affect HBsAg detection. Antiviral Res (2011) 0.97
SearchXLinks. A program for the identification of disulfide bonds in proteins from mass spectra. Anal Chem (2006) 0.94
Prevalence of C-terminal gag cleavage site mutations in HIV from therapy-naïve patients. J Infect (2008) 0.94
Novel algorithm for non-invasive assessment of fibrosis in NAFLD. PLoS One (2013) 0.93
Molecular epidemiology of HIV in a cohort of men having sex with men from Istanbul. Med Microbiol Immunol (2013) 0.93
Structure of HIV-1 quasi-species as early indicator for switches of co-receptor tropism. AIDS Res Ther (2010) 0.93
Interpol: An R package for preprocessing of protein sequences. BioData Min (2011) 0.92
Hepatitis B surface antigen genetic elements critical for immune escape correlate with hepatitis B virus reactivation upon immunosuppression. Hepatology (2015) 0.91
Microfluidic biochip for chemiluminescent detection of allergen-specific antibodies. Biosens Bioelectron (2008) 0.91
Novel mechanisms of HIV protease inhibitor resistance. Curr Opin HIV AIDS (2008) 0.91
Alternative proteolytic processing of hepatocyte growth factor during wound repair. Am J Pathol (2009) 0.91
The imprinted NPAP1/C15orf2 gene in the Prader-Willi syndrome region encodes a nuclear pore complex associated protein. Hum Mol Genet (2012) 0.89
Improved Bevirimat resistance prediction by combination of structural and sequence-based classifiers. BioData Min (2011) 0.88
Evolution of HIV resistance during treatment interruption in experienced patients and after restarting a new therapy. J Clin Virol (2005) 0.88
Prevalence and characteristics of hepatitis B and C virus infections in treatment-naïve HIV-infected patients. Med Microbiol Immunol (2010) 0.88
Genotyping hepatitis B virus dual infections using population-based sequence data. J Gen Virol (2012) 0.87
Photoaffinity labelling of the human GM2-activator protein. Mechanistic insight into ganglioside GM2 degradation. Eur J Biochem (2004) 0.87
Escape from a dominant HLA-B*15-restricted CD8+ T cell response against hepatitis C virus requires compensatory mutations outside the epitope. J Virol (2011) 0.86
Structural modeling of ataxin-3 reveals distant homology to adaptins. Proteins (2003) 0.86
Evolutionary Pareto-optimization of stably folding peptides. BMC Bioinformatics (2008) 0.86
Mutational patterns in the frameshift-regulating site of HIV-1 selected by protease inhibitors. Med Microbiol Immunol (2011) 0.85
Evolution of protease inhibitor resistance in the gag and pol genes of HIV subtype G isolates. J Antimicrob Chemother (2010) 0.85
Differential selection in HIV-1 gp120 between subtype B and East Asian variant B'. Virol Sin (2014) 0.85
The evolution of protease mutation 76V is associated with protease mutation 46I and gag mutation 431V. AIDS (2010) 0.84
An emerging role of Sonic hedgehog shedding as a modulator of heparan sulfate interactions. J Biol Chem (2012) 0.84
A multiobjective evolutionary method for the design of peptidic mimotopes. J Comput Biol (2006) 0.84
Anti-HBV treatment induces novel reverse transcriptase mutations with reflective effect on HBV S antigen. J Infect (2013) 0.83
The B-cell epitope of the monoclonal anti-factor VIII antibody ESH8 characterized by peptide array analysis. Thromb Haemost (2008) 0.83
A small set of succinct signature patterns distinguishes Chinese and non-Chinese HIV-1 genomes. PLoS One (2013) 0.83
Novel tetra-peptide insertion in Gag-p6 ALIX-binding motif in HIV-1 subtype C associated with protease inhibitor failure in Indian patients. AIDS (2014) 0.83
Seasonal influenza virus species in patient swab samples analyzed for the presence of the pandemic (H1N1) 2009 influenza virus. J Clin Microbiol (2009) 0.83
The normal-mode entropy in the MM/GBSA method: effect of system truncation, buffer region, and dielectric constant. J Chem Inf Model (2012) 0.82
The enzyme-binding region of human GM2-activator protein. FEBS J (2006) 0.82
HIV-1 Gag C-terminal amino acid substitutions emerging under selective pressure of protease inhibitors in patient populations infected with different HIV-1 subtypes. Retrovirology (2014) 0.82
mecC- and mecA-positive meticillin-resistant Staphylococcus aureus (MRSA) isolated from livestock sharing habitat with wildlife previously tested positive for mecC-positive MRSA. Vet Dermatol (2014) 0.81
Spontaneous reactivation of hepatitis B virus replication in an HIV coinfected patient with isolated anti-Hepatitis B core antibodies. Virol J (2014) 0.80
High frequency of complex mutational patterns in lamivudine resistant hepatitis B virus isolates. J Med Virol (2013) 0.80
Design of a modular protein-based MRI contrast agent for targeted application. PLoS One (2013) 0.80
Parental origin and functional relevance of a de novo UBE3A variant. Eur J Med Genet (2010) 0.80
Transient domain interactions enhance the affinity of the mitotic regulator Pin1 toward phosphorylated peptide ligands. Structure (2013) 0.80
An additional glucose dehydrogenase from Sulfolobus solfataricus: fine-tuning of sugar degradation? Biochem Soc Trans (2011) 0.79
Overlapping structure of hepatitis B virus (HBV) genome and immune selection pressure are critical forces modulating HBV evolution. J Gen Virol (2012) 0.79
Widespread regulation of gene expression in the Drosophila genome by the histone acetyltransferase dTip60. Chromosoma (2009) 0.78
Single-domain parvulins constitute a specific marker for recently proposed deep-branching archaeal subgroups. Evol Bioinform Online (2011) 0.78
Determination of drug resistance and virus typology in HIV-1-positive pediatric patients in Istanbul, Turkey. Intervirology (2014) 0.77
More on shift of HIV tropism in stem-cell transplantation with CCR5 delta32/delta32 mutation. N Engl J Med (2014) 0.77
Estimating affinities of calcium ions to proteins. Adv Appl Bioinform Chem (2010) 0.77
HIV-1 subtypes and drug resistance profiles in a cohort of heterosexual patients in Istanbul, Turkey. Med Microbiol Immunol (2015) 0.76
Inference of global HIV-1 sequence patterns and preliminary feature analysis. Virol Sin (2013) 0.76
Partial reduction and two-step modification of proteins for identification of disulfide bonds. Anal Chem (2002) 0.76
A new approach to inhibit human β-tryptase by protein surface binding of four-armed peptide ligands with two different sets of arms. Org Biomol Chem (2013) 0.76
Primarily oseltamivir-resistant influenza A (H1N1pdm09) virus evolving into a multidrug-resistant virus carrying H275Y and I223R neuraminidase substitutions. Antivir Ther (2014) 0.76
Virus-Induced Type I Interferon Deteriorates Control of Systemic Pseudomonas Aeruginosa Infection. Cell Physiol Biochem (2015) 0.75
The antiretroviral potency of emtricitabine is approximately 3-fold higher compared to lamivudine in dual human immunodeficiency virus type 1 infection/competition experiments in vitro. Antiviral Res (2010) 0.75
Pre-exposure prophylaxis failure with tenofovir disoproxil. AIDS (2017) 0.75