Genome-scale detection of positive selection in nine primates predicts human-virus evolutionary conflicts

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Chimpanzee genomic diversity reveals ancient admixture with bonobos

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Genome-wide patterns of selection in 230 ancient Eurasians

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Overlapping Patterns of Rapid Evolution in the Nucleic Acid Sensors cGAS and OAS1 Suggest a Common Mechanism of Pathogen Antagonism and Escape

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Ancient and Recent Selective Pressures Shaped Genetic Diversity at AIM2-Like Nucleic Acid Sensors

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TCS: A New Multiple Sequence Alignment Reliability Measure to Estimate Alignment Accuracy and Improve Phylogenetic Tree Reconstruction

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Rapid Evolution of PARP Genes Suggests a Broad Role for ADP-Ribosylation in Host-Virus Conflicts

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Selection and Adaptation in the Human Genome

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Identifying Recent Adaptations in Large-Scale Genomic Data

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MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

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Selectome update: quality control and computational improvements to a database of positive selection

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A Model-Based Analysis of GC-Biased Gene Conversion in the Human and Chimpanzee Genomes

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Genic Intolerance to Functional Variation and the Interpretation of Personal Genomes

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Rules of Engagement: Molecular Insights from Host-Virus Arms Races

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CENP-T-W-S-X Forms a Unique Centromeric Chromatin Structure with a Histone-like Fold

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Evolution-Guided Identification of Antiviral Specificity Determinants in the Broadly Acting Interferon-Induced Innate Immunity Factor MxA

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Evolutionary and Functional Analyses of the Interaction between the Myeloid Restriction Factor SAMHD1 and the Lentiviral Vpx Protein

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Convergent Evolution of Escape from Hepaciviral Antagonism in Primates

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GogB Is an Anti-Inflammatory Effector that Limits Tissue Damage during Salmonella Infection through Interaction with Human FBXO22 and Skp1

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Trans genomic capture and sequencing of primate exomes reveals new targets of positive selection

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High sensitivity to aligner and high rate of false positives in the estimates of positive selection in the 12 Drosophila genomes

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The Effects of Alignment Error and Alignment Filtering on the Sitewise Detection of Positive Selection

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Mitochondrial–Nuclear Interactions and Accelerated Compensatory Evolution: Evidence from the Primate Cytochrome c Oxidase Complex

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Improving the Performance of Positive Selection Inference by Filtering Unreliable Alignment Regions

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Structural principles within the human-virus protein-protein interaction network

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Weighing the evidence for adaptation at the molecular level

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A Molecular Phylogeny of Living Primates

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Positive selection of HIV host factors and the evolution of lentivirus genes

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Interaction of Decay-Accelerating Factor with Echovirus 7

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Structure of Adenovirus Type 21 Knob in Complex with CD46 Reveals Key Differences in Receptor Contacts among Species B Adenoviruses

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Adaptation and Constraint at Toll-Like Receptors in Primates

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An Alignment Confidence Score Capturing Robustness to Guide Tree Uncertainty

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The Effect of Insertions, Deletions, and Alignment Errors on the Branch-Site Test of Positive Selection

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Fine-scale recombination rate differences between sexes, populations and individuals

(2010) Augustine Kong et al.   NATURE

Detecting positive selection within genomes: the problem of biased gene conversion

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Genome-Wide Identification of Susceptibility Alleles for Viral Infections through a Population Genetics Approach

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Major Evolutionary Transitions in Centromere Complexity

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The apolipoprotein L family of programmed cell death and immunity genes rapidly evolved in primates at discrete sites of host-pathogen interactions

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PDB_REDO: automated re-refinement of X-ray structure models in the PDB

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Evolutionary Trajectories of Primate Genes Involved in HIV Pathogenesis

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Structure of the measles virus hemagglutinin bound to the CD46 receptor

(2009) César Santiago et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mutation of a Single Residue Renders Human Tetherin Resistant to HIV-1 Vpu-Mediated Depletion

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Protein kinase R reveals an evolutionary model for defeating viral mimicry

(2008) Nels C. Elde et al.   NATURE

Alignment Uncertainty and Genomic Analysis

(2008) K. M. Wong et al.   SCIENCE

Phylogeny-Aware Gap Placement Prevents Errors in Sequence Alignment and Evolutionary Analysis

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Patterns of Positive Selection in Six Mammalian Genomes

(2008) Carolin Kosiol et al.   PLoS Genetics