Published in PLoS Pathog on April 14, 2011
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Strategic interactions in multi-institutional epidemics of antibiotic resistance. Proc Natl Acad Sci U S A (2005) 1.92
The epidemiological fitness cost of drug resistance in Mycobacterium tuberculosis. Proc Natl Acad Sci U S A (2009) 1.71
Evolving problems with resistant pathogens. Clin Microbiol Infect (2008) 1.31
A national analysis of the relationship between hospital factors and post-cardiac arrest mortality. Intensive Care Med (2008) 1.16
Retrospective evidence for a biological cost of vancomycin resistance determinants in the absence of glycopeptide selective pressures. J Antimicrob Chemother (2011) 1.04
Antibiotic rotation and development of gram-negative antibiotic resistance. Am J Respir Crit Care Med (2004) 1.04
Extensive hospital-wide spread of a multidrug-resistant enterobacter cloacae clone, with late detection due to a variable antibiogram and frequent patient transfer. J Clin Microbiol (2006) 1.04
Relationships between patient- and institution-specific variables and decreased antimicrobial susceptibility of Gram-negative pathogens. Clin Infect Dis (2003) 1.01
The relationship between hospital infection surveillance and control activities and antibiotic-resistant pathogen rates. Am J Infect Control (2005) 0.98
Is it better to be big? The reconfiguration of 21st century hospitals: responses to a hospital merger in Sweden. Health Policy (2008) 0.95
Antibiotic use in two cohorts of German intensive care units. J Hosp Infect (2006) 0.89
Nosocomial and community-acquired meticillin-resistant Staphylococcus aureus infections in hospitalized patients (Spain, 1993-2003). J Hosp Infect (2006) 0.82
Antibiotic dose impact on resistance selection in the community: a mathematical model of beta-lactams and Streptococcus pneumoniae dynamics. Antimicrob Agents Chemother (2010) 0.80
A systems analysis of mutational effects in HIV-1 protease and reverse transcriptase. Nat Genet (2011) 2.66
Emergence of drug-resistant influenza virus: population dynamical considerations. Science (2006) 2.46
Molecular epidemiology reveals long-term changes in HIV type 1 subtype B transmission in Switzerland. J Infect Dis (2010) 2.21
Dynamic variation in cycling of hematopoietic stem cells in steady state and inflammation. J Exp Med (2011) 2.18
Emergence of minor populations of human immunodeficiency virus type 1 carrying the M184V and L90M mutations in subjects undergoing structured treatment interruptions. J Infect Dis (2003) 2.17
The effect of opinion clustering on disease outbreaks. J R Soc Interface (2008) 2.12
Population biological principles of drug-resistance evolution in infectious diseases. Lancet Infect Dis (2011) 2.11
Birth-death skyline plot reveals temporal changes of epidemic spread in HIV and hepatitis C virus (HCV). Proc Natl Acad Sci U S A (2012) 2.07
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Experimental tests for an evolutionary trade-off between growth rate and yield in E. coli. Am Nat (2006) 1.99
Evolution of cooperation by generalized reciprocity. Proc Biol Sci (2005) 1.96
Using an epidemiological model for phylogenetic inference reveals density dependence in HIV transmission. Mol Biol Evol (2013) 1.88
Estimating the basic reproductive number from viral sequence data. Mol Biol Evol (2011) 1.86
Stable virulence levels in the HIV epidemic of Switzerland over two decades. AIDS (2006) 1.81
Epistasis between deleterious mutations and the evolution of recombination. Trends Ecol Evol (2007) 1.79
The HIV coreceptor switch: a population dynamical perspective. Trends Microbiol (2005) 1.76
Entry and transcription as key determinants of differences in CD4 T-cell permissiveness to human immunodeficiency virus type 1 infection. J Virol (2004) 1.68
Ambiguous nucleotide calls from population-based sequencing of HIV-1 are a marker for viral diversity and the age of infection. Clin Infect Dis (2011) 1.64
Phylogenetic approach reveals that virus genotype largely determines HIV set-point viral load. PLoS Pathog (2010) 1.63
Stochastic or deterministic: what is the effective population size of HIV-1? Trends Microbiol (2006) 1.58
An evolutionary scenario for the transition to undifferentiated multicellularity. Proc Natl Acad Sci U S A (2003) 1.55
The evolution of connectivity in metabolic networks. PLoS Biol (2005) 1.54
Recombination in HIV and the evolution of drug resistance: for better or for worse? Bioessays (2004) 1.54
Long-term trends of HIV type 1 drug resistance prevalence among antiretroviral treatment-experienced patients in Switzerland. Clin Infect Dis (2009) 1.50
Inferring epidemic contact structure from phylogenetic trees. PLoS Comput Biol (2012) 1.47
Evolution of cross-feeding in microbial populations. Am Nat (2004) 1.46
Estimating the stoichiometry of human immunodeficiency virus entry. J Virol (2008) 1.36
Quantification of infectious HIV-1 plasma viral load using a boosted in vitro infection protocol. Virology (2004) 1.32
Uncovering epidemiological dynamics in heterogeneous host populations using phylogenetic methods. Philos Trans R Soc Lond B Biol Sci (2013) 1.31
Simulating the evolution of signal transduction pathways. J Theor Biol (2006) 1.31
The evolution of groups of cooperating bacteria and the growth rate versus yield trade-off. Microbiology (2005) 1.30
Interchromatid and interhomolog recombination in Arabidopsis thaliana. Plant Cell (2004) 1.26
The state of affairs in the kingdom of the Red Queen. Trends Ecol Evol (2008) 1.23
Stochastic interplay between mutation and recombination during the acquisition of drug resistance mutations in human immunodeficiency virus type 1. J Virol (2005) 1.18
Human immunodeficiency virus type 1 fitness is a determining factor in viral rebound and set point in chronic infection. J Virol (2003) 1.18
Rapid parasite adaptation drives selection for high recombination rates. Evolution (2007) 1.18
Exploring the complexity of the HIV-1 fitness landscape. PLoS Genet (2012) 1.17
Evolution of complexity in signaling pathways. Proc Natl Acad Sci U S A (2006) 1.14
Humoral immunity to HIV-1: kinetics of antibody responses in chronic infection reflects capacity of immune system to improve viral set point. Blood (2004) 1.14
Effect of varying epistasis on the evolution of recombination. Genetics (2006) 1.14
The effect of population structure on the emergence of drug resistance during influenza pandemics. J R Soc Interface (2007) 1.12
Bi-modal distribution of the second messenger c-di-GMP controls cell fate and asymmetry during the caulobacter cell cycle. PLoS Genet (2013) 1.12
Rapid viral decay in simian immunodeficiency virus-infected macaques receiving quadruple antiretroviral therapy. J Virol (2006) 1.10
African descent is associated with slower CD4 cell count decline in treatment-naive patients of the Swiss HIV Cohort Study. AIDS (2009) 1.08
Assessing predicted HIV-1 replicative capacity in a clinical setting. PLoS Pathog (2011) 1.06
The effect of multifunctionality on the rate of evolution in yeast. Mol Biol Evol (2005) 1.06
Assessing the impact of adherence to anti-retroviral therapy on treatment failure and resistance evolution in HIV. J R Soc Interface (2012) 1.05
Dose-dependent infection rates of parasites produce the Allee effect in epidemiology. Proc Biol Sci (2002) 1.04
The role of migration and domestic transmission in the spread of HIV-1 non-B subtypes in Switzerland. J Infect Dis (2011) 1.03
Red Queen dynamics with non-standard fitness interactions. PLoS Comput Biol (2009) 1.03
Compensation of fitness costs and reversibility of antibiotic resistance mutations. Antimicrob Agents Chemother (2010) 1.01
Residual viral replication during antiretroviral therapy boosts human immunodeficiency virus type 1-specific CD8+ T-cell responses in subjects treated early after infection. J Virol (2002) 0.97
Virus evolution: the importance of being erroneous. Nature (2002) 0.97
The evolution of network topology by selective removal. J R Soc Interface (2005) 0.96
Evolution of stress response in the face of unreliable environmental signals. PLoS Comput Biol (2012) 0.96
Mutation accumulation in space and the maintenance of sexual reproduction. Ecol Lett (2006) 0.96
Signal transduction networks: topology, response and biochemical processes. J Theor Biol (2005) 0.95
The role of epistasis on the evolution of recombination in host-parasite coevolution. Theor Popul Biol (2008) 0.94
High epitope expression levels increase competition between T cells. PLoS Comput Biol (2006) 0.93
Spatial models of virus-immune dynamics. J Theor Biol (2004) 0.93
Informed switching strongly decreases the prevalence of antibiotic resistance in hospital wards. PLoS Comput Biol (2011) 0.93
The role of recombination for the coevolutionary dynamics of HIV and the immune response. PLoS One (2011) 0.92
Decelerating decay of latently infected cells during prolonged therapy for human immunodeficiency virus type 1 infection. J Virol (2002) 0.92
Viral dynamics and in vivo fitness of HIV-1 in the presence and absence of enfuvirtide. J Acquir Immune Defic Syndr (2008) 0.92
The Red Queen and the persistence of linkage-disequilibrium oscillations in finite and infinite populations. BMC Evol Biol (2007) 0.91
On the causes of selection for recombination underlying the red queen hypothesis. Am Nat (2009) 0.90
Modelling cytomegalovirus replication patterns in the human host: factors important for pathogenesis. Proc Biol Sci (2006) 0.90
Recombination and drug resistance in HIV: population dynamics and stochasticity. Epidemics (2008) 0.90
Guanine-adenine bias: a general property of retroid viruses that is unrelated to host-induced hypermutation. Trends Genet (2005) 0.88
Bacterial growth properties at low optical densities. Antonie Van Leeuwenhoek (2009) 0.87
Contribution of peaks of virus load to simian immunodeficiency virus pathogenesis. J Virol (2002) 0.84
Pre-existence and emergence of drug resistance in a generalized model of intra-host viral dynamics. Epidemics (2012) 0.84
Social meets molecular: Combining phylogenetic and latent class analyses to understand HIV-1 transmission in Switzerland. Am J Epidemiol (2014) 0.83
Contribution of recombination to the evolutionary history of HIV. Curr Opin HIV AIDS (2015) 0.82
HIV coreceptor usage and drug treatment. J Theor Biol (2002) 0.82
Nested model reveals potential amplification of an HIV epidemic due to drug resistance. Epidemics (2012) 0.82
HIV replication elicits little cytopathic effects in vivo: analysis of surrogate markers for virus production, cytotoxic T cell response and infected cell death. J Med Virol (2006) 0.82
Plasmids and evolutionary rescue by drug resistance. Evolution (2014) 0.81
Weighting for sex acts to understand the spread of STI on networks. J Theor Biol (2012) 0.81
Virus-induced target cell activation reconciles set-point viral load heritability and within-host evolution. Epidemics (2013) 0.81
Principal component analysis of general patterns of HIV-1 replicative fitness in different drug environments. Epidemics (2010) 0.81
Estimating the fitness cost of escape from HLA presentation in HIV-1 protease and reverse transcriptase. PLoS Comput Biol (2012) 0.81
Epitope down-modulation as a mechanism for the coexistence of competing T-cells. J Theor Biol (2004) 0.80
Short communication: HIV type 2 dynamics. AIDS Res Hum Retroviruses (2005) 0.80
Fixation probability of mobile genetic elements such as plasmids. Theor Popul Biol (2013) 0.79
Can high-risk fungicides be used in mixtures without selecting for fungicide resistance? Phytopathology (2014) 0.78
Predicting the evolution of sex on complex fitness landscapes. PLoS Comput Biol (2009) 0.78
On the evolution of sexual reproduction in hosts coevolving with multiple parasites. Evolution (2010) 0.77
On the role of resonance in drug failure under HIV treatment interruption. Theor Biol Med Model (2013) 0.75
Response to Bandeira and Faro: Closing the circle of constraints. Trends Immunol (2003) 0.75
Dissecting HIV Virulence: Heritability of Setpoint Viral Load, CD4+ T Cell Decline and Per-Parasite Pathogenicity. Mol Biol Evol (2017) 0.75
Research on infectious disease dynamics. Introduction. Epidemics (2009) 0.75
Invasiveness of plant pathogens depends on the spatial scale of host distribution. Ecol Appl (2016) 0.75