List of works - Miguel Arenas

Advances in computer simulation of genome evolution: toward more realistic evolutionary genomics analysis by approximate bayesian computation

scientific article published on 26 March 2015

Characterization of phylogenetic networks with NetTest

scientific article

Characterization of rare ABCC8 variants identified in Spanish pulmonary arterial hypertension patients

scientific article published on 15 September 2020

Characterization of reticulate networks based on the coalescent with recombination

scientific article

Coalescent simulation of intracodon recombination

scientific article

CodABC: a computational framework to coestimate recombination, substitution, and molecular adaptation rates by approximate Bayesian computation

scientific article published on 9 January 2015

Coestimation of recombination, substitution and molecular adaptation rates by approximate Bayesian computation

scientific article published on 23 October 2013

Computational Design of Centralized HIV-1 Genes ⬇️

scientific article published on December 1, 2010

Computer programs and methodologies for the simulation of DNA sequence data with recombination

scientific article

Consequences of diverse evolutionary processes on american genetic gradients of modern humans

Consequences of range contractions and range shifts on molecular diversity

scientific article

Contrasting evolutionary patterns in populations of demersal sharks throughout the western Mediterranean

scientific article published in 2017

Diverse Considerations for Successful Phylogenetic Tree Reconstruction: Impacts from Model Misspecification, Recombination, Homoplasy, and Pattern Recognition

article

Ecological connectivity shapes quasispecies structure of RNA viruses in an Antarctic lake

scientific article published on 21 July 2015

Epiphytic fungal community in Vitis vinifera of the Portuguese wine regions.

scientific article

Ethnic differences in the adaptation rate of HIV gp120 from a vaccine trial

scientific article

Evaluating the Neolithic Expansion at Both Shores of the Mediterranean Sea.

scientific article published on 26 September 2017

Evolutionary dynamics of the human pseudoautosomal regions

scientific article published on 19 April 2021

Forensic genetics and genomics: Much more than just a human affair

scientific article published on 21 September 2017

Genetic Consequences of Antiviral Therapy on HIV-1.

scientific article published on 10 June 2015

Genetic consequences of habitat fragmentation during a range expansion

scientific article

Genome-Wide Scan for Five Brain Oscillatory Phenotypes Identifies a New QTL Associated with Theta EEG Band

scientific article published on 18 November 2020

Heterogeneous recombination among Hepatitis B virus genotypes

scientific article published on 18 August 2017

High-throughput sequencing (HTS) for the analysis of viral populations

scientific article published on 27 January 2020

Influence of Paleolithic Range Contraction, Admixture and Long-Distance Dispersal on Genetic Gradients of Modern Humans in Asia

scientific article published on 20 May 2020

Influence of admixture and paleolithic range contractions on current European diversity gradients

scientific article published on 25 August 2012

Influence of mutation and recombination on HIV-1 in vitro fitness recovery

scientific article published on 7 September 2015

Influence of mutation bias and hydrophobicity on the substitution rates and sequence entropies of protein evolution

scientific article published on 05 October 2018

Influence of mutation bias and hydrophobicity on the substitution rates and sequence entropies of protein evolution

Long-Distance Dispersal Shaped Patterns of Human Genetic Diversity in Eurasia

scientific article published on 4 December 2015

Maximum-Likelihood Phylogenetic Inference with Selection on Protein Folding Stability

scientific article published on 2 April 2015

Microbial sequence typing in the genomic era.

scientific article published on 21 September 2017

Mutation and recombination in pathogen evolution: Relevance, methods and controversies.

scientific article published on 22 September 2017

Phylodynamics of HIV-1 from a phase III AIDS vaccine trial in Bangkok, Thailand

scientific article

Prediction and analysis of binding affinities for chemically diverse HIV-1 PR inhibitors by the modified SAFE_p approach.

scientific article

ProtASR: An Evolutionary Framework for Ancestral Protein Reconstruction with Selection on Folding Stability

scientific article

Protein Evolution in the Flaviviruses

scientific article published on 25 May 2020

Protein evolution along phylogenetic histories under structurally constrained substitution models.

scientific article

Recodon: coalescent simulation of coding DNA sequences with recombination, migration and demography

scientific article

Recombination in viruses: mechanisms, methods of study, and evolutionary consequences.

scientific article published on 23 December 2014

SPLATCHE3: simulation of serial genetic data under spatially explicit evolutionary scenarios including long-distance dispersal

scientific article published on 01 November 2019

Selecting among Alternative Scenarios of Human Evolution by Simulated Genetic Gradients

scientific article published on 18 October 2018

Simulation of coding sequence evolution

Simulation of genome-wide evolution under heterogeneous substitution models and complex multispecies coalescent histories

scientific article

Simulation of molecular data under diverse evolutionary scenarios

scientific article (publication date: May 2012)

Spatial and temporal simulation of human evolution. Methods, frameworks and applications

scientific article

Spatially explicit analysis reveals complex human genetic gradients in the Iberian Peninsula.

scientific article published on 24 May 2019

The Early Peopling of the Philippines based on mtDNA

scientific article published on 17 March 2020

The Influence of Protein Stability on Sequence Evolution: Applications to Phylogenetic Inference

scientific article published on 01 January 2019

The effect of recombination on the reconstruction of ancestral sequences

scientific article

The importance and application of the ancestral recombination graph

scientific article published on 14 October 2013

The influence of heterogeneous codon frequencies along sequences on the estimation of molecular adaptation

scientific article published on 01 January 2020

Trends in substitution models of molecular evolution

scientific article published on 26 October 2015

List of works by Miguel Arenas

Advances in computer simulation of genome evolution: toward more realistic evolutionary genomics analysis by approximate bayesian computation

Characterization of phylogenetic networks with NetTest

Characterization of rare ABCC8 variants identified in Spanish pulmonary arterial hypertension patients

Characterization of reticulate networks based on the coalescent with recombination

Coalescent simulation of intracodon recombination

CodABC: a computational framework to coestimate recombination, substitution, and molecular adaptation rates by approximate Bayesian computation

Coestimation of recombination, substitution and molecular adaptation rates by approximate Bayesian computation

Computational Design of Centralized HIV-1 Genes ⬇️

Computer programs and methodologies for the simulation of DNA sequence data with recombination

Consequences of diverse evolutionary processes on american genetic gradients of modern humans

Consequences of range contractions and range shifts on molecular diversity

Contrasting evolutionary patterns in populations of demersal sharks throughout the western Mediterranean

Diverse Considerations for Successful Phylogenetic Tree Reconstruction: Impacts from Model Misspecification, Recombination, Homoplasy, and Pattern Recognition

Ecological connectivity shapes quasispecies structure of RNA viruses in an Antarctic lake

Epiphytic fungal community in Vitis vinifera of the Portuguese wine regions.

Ethnic differences in the adaptation rate of HIV gp120 from a vaccine trial

Evaluating the Neolithic Expansion at Both Shores of the Mediterranean Sea.

Evolutionary dynamics of the human pseudoautosomal regions

Forensic genetics and genomics: Much more than just a human affair

Genetic Consequences of Antiviral Therapy on HIV-1.

Genetic consequences of habitat fragmentation during a range expansion

Genome-Wide Scan for Five Brain Oscillatory Phenotypes Identifies a New QTL Associated with Theta EEG Band

Heterogeneous recombination among Hepatitis B virus genotypes

High-throughput sequencing (HTS) for the analysis of viral populations

Influence of Paleolithic Range Contraction, Admixture and Long-Distance Dispersal on Genetic Gradients of Modern Humans in Asia

Influence of admixture and paleolithic range contractions on current European diversity gradients

Influence of mutation and recombination on HIV-1 in vitro fitness recovery

Influence of mutation bias and hydrophobicity on the substitution rates and sequence entropies of protein evolution

Influence of mutation bias and hydrophobicity on the substitution rates and sequence entropies of protein evolution

Influence of mutation bias and hydrophobicity on the substitution rates and sequence entropies of protein evolution

Long-Distance Dispersal Shaped Patterns of Human Genetic Diversity in Eurasia

Maximum-Likelihood Phylogenetic Inference with Selection on Protein Folding Stability

Microbial sequence typing in the genomic era.

Mutation and recombination in pathogen evolution: Relevance, methods and controversies.

Phylodynamics of HIV-1 from a phase III AIDS vaccine trial in Bangkok, Thailand

Prediction and analysis of binding affinities for chemically diverse HIV-1 PR inhibitors by the modified SAFE_p approach.

ProtASR: An Evolutionary Framework for Ancestral Protein Reconstruction with Selection on Folding Stability

Protein Evolution in the Flaviviruses

Protein evolution along phylogenetic histories under structurally constrained substitution models.

Recodon: coalescent simulation of coding DNA sequences with recombination, migration and demography

Recombination in viruses: mechanisms, methods of study, and evolutionary consequences.

SPLATCHE3: simulation of serial genetic data under spatially explicit evolutionary scenarios including long-distance dispersal

Selecting among Alternative Scenarios of Human Evolution by Simulated Genetic Gradients

Simulation of coding sequence evolution

Simulation of genome-wide evolution under heterogeneous substitution models and complex multispecies coalescent histories

Simulation of molecular data under diverse evolutionary scenarios

Spatial and temporal simulation of human evolution. Methods, frameworks and applications

Spatially explicit analysis reveals complex human genetic gradients in the Iberian Peninsula.

The Early Peopling of the Philippines based on mtDNA

The Influence of Protein Stability on Sequence Evolution: Applications to Phylogenetic Inference

The effect of recombination on the reconstruction of ancestral sequences

The importance and application of the ancestral recombination graph

The influence of heterogeneous codon frequencies along sequences on the estimation of molecular adaptation

Trends in substitution models of molecular evolution