Publications related to Nearly neutral theory of molecular evolution

Related publications (28)

The Digital Ethics Canvas: A Guide For Ethical Risk Assessment And Mitigation In The Digital Domain

Vladimir Macko, Patrick Jermann, Adrian Christian Holzer, Cécile Hardebolle, Vivek Ramachandran

Ethical concerns in the digital domain are growing with the extremely fast evolution of technology and the increasing scale at which software is deployed, potentially affecting our societies globally. It is crucial that engineers evaluate more systematical ...

2023

A self-consistent multi-component model of plasma turbulence and kinetic neutral dynamics for the simulation of the tokamak boundary

Paolo Ricci

A self-consistent model is presented for the simulation of a multi-component plasma in the tokamak boundary. A deuterium plasma is considered, with the plasma species that include electrons, deuterium atomic ions and deuterium molecular ions, while the deu ...

IOP Publishing Ltd2022

Hydrodynamic flow and concentration gradients in the gut enhance neutral bacterial diversity

Anne-Florence Raphaëlle Bitbol

The gut microbiota features important genetic diversity, and the specific spatial features of the gut may shape evolution within this environment. We investigate the fixation probability of neutral bacterial mutants within a minimal model of the gut that i ...

National Academy of Sciences2022

Self-consistent simulation of multi-component plasma turbulence and neutral dynamics in the tokamak boundary

André Calado Coroado

The interaction between neutral particles and the plasma plays a key role in determining the dynamics of the tokamak boundary that, in turn, significantly impact the overall performance of the device. Leveraging the work in Wersal and Ricci [Nucl. Fusion 5 ...

EPFL2021

Studies of cold chemistry in crossed and merged neutral beams

Silvia Tanteri

In this thesis we present the design of two setups to study low-energy collisions between neutral species: an electron velocity map imaging for chemi-ionisation reactions and a merged electrostatic guide for polar molecules scattering. In the past few yea ...

EPFL2021

Atomic data for the

Carmela Lardo

Context. We describe the atomic and molecular data that were used for the abundance analyses of FGK-type stars carried out within the Gaia-ESO Public Spectroscopic Survey in the years 2012 to 2019. The Gaia-ESO Survey is one among several current and futur ...

EDP SCIENCES S A2021

Loss of transverse Landau damping by noise and wakefield driven diffusion

Xavier Buffat, Sondre Vik Furuseth

Landau damping of coherent modes is strongly dependent on the exact shape of the particle bunches. One often assumes that the transverse distributions in high-energy hadron colliders can be approximated by Gaussian distributions, in acceptable agreement wi ...

2020

Identification and characterisation of small-molecule inhibitors targeting STING

Simone Margret Haag

The recognition of pathogen-derived nucleic acids is a critical mechanism by which the innate immune system detects viral infection. Upon activation, nucleic acid sensors initiate the expression of type I interferons and other inflammatory mediators, subse ...

EPFL2019

Population structure determines the tradeoff between fixation probability and fixation time

Andreas Pavlogiannis

The rate of biological evolution depends on the fixation probability and on the fixation time of new mutants. Intensive research has focused on identifying population structures that augment the fixation probability of advantageous mutants. But these ampli ...

Springer2019

Elevated HLA-A expression impairs HIV control through inhibition of NKG2A-expressing cells

Jacques Fellay

The highly polymorphic human leukocyte antigen (HLA) locus encodes cell surface proteins that are critical for immunity. HLA-A expression levels vary in an allele-dependent manner, diversifying allele-specific effects beyond peptide-binding preference. Ana ...

American Association for the Advancement of Science2018

The effect of overall stimulus configuration on crowding

Michael Herzog, Maya Roinishvili, Mattew Pachai

The standard framework to study vision is typically hierarchical and feedforward, which facilitates deconstructing complex mechanisms into smaller, more tractable problems. However, this framework can fail when elements are presented in context, as they ar ...

2017

Impact of neutral density fluctuations on gas puff imaging diagnostics

Paolo Ricci, Christoph Wersal

A three-dimensional turbulence simulation of the SOL and edge regions of a toroidally limited tokamak is carried out. The simulation couples self-consistently the drift-reduced two-fluid Braginskii equations to a kinetic equation for neutral atoms. A diagn ...

International Atomic Energy Agency2017

On the Analysis of Intrahost and Interhost Viral Populations: Human Cytomegalovirus as a Case Study of Pitfalls and Expectations

Jeffrey David Jensen, Susanne Petra Pfeifer, Sebastian Matuszewski

Intrahost and interhost assessments of viral diversity are often treated as measures of separate and distinct evolutionary processes, with numerous investigations reporting seemingly incompatible results between the two. For example, in human cytomegalovir ...

American Society for Microbiology2017

On the relative roles of background selection and genetic hitchhiking in shaping human cytomegalovirus genetic diversity

Jeffrey David Jensen

A central focus of population genetics has been examining the contribution of selective and neutral processes in shaping patterns of intraspecies diversity. In terms of selection specifically, surveys of higher organisms have shown considerable variation i ...

Wiley-Blackwell2016

An Approximate Markov Model for the Wright-Fisher Diffusion and Its Application to Time Series Data

Jeffrey David Jensen

The joint and accurate inference of selection and demography from genetic data is considered a particularly challenging question in population genetics, since both process may lead to very similar patterns of genetic diversity. However, additional informat ...

Genetics Society America2016

Comparisons of verbal fluency brain correlates between adults and adolescents suffering from schizophrenia spectrum disorders: A pilot study

Pierre Magistretti, Pierre Marquet

Background and Objectives: Prefrontal cortex (PFC) dysfunctions leading to cognitive deficits refer to a core feature of schizophrenia spectrum disorders (SSD). This exploratory study compares the effect of SSD on two stages of maturation of PFC. Methods: ...

European Journal Of Psychiatry2016

Coalescent inferences in conservation genetics: should the exception become the rule?

Genetic estimates of effective population size (Ne) are an established means to develop informed conservation policies. Another key goal to pursue the conservation of endangered species is keeping the connectivity across fragmented environments, to which g ...

Royal Soc2016

Optimization of Conformational Dynamics in an Epistatic Evolutionary Trajectory

Luciano Andres Abriata

The understanding of protein evolution depends on the ability to relate the impact of mutations on molecular traits to organismal fitness. Biological activity and robustness have been regarded as important features in shaping protein evolutionary landscape ...

Oxford Univ Press2016

Following dislocation patterning during fatigue

Helena Van Swygenhoven, Steven Van Petegem, Nicolò Grilli, Ainara Irastorza Landa

Precursors of failure are dislocation mechanisms at the nanoscale and dislocation organization at the mesoscale responsible for long-range internal stresses and lattice rotation. Detailed information on the link between both scales is missing, computationa ...

Elsevier2016

A Systematic Survey of an Intragenic Epistatic Landscape

Jeffrey David Jensen, Claudia Bank

Mutations are the source of evolutionary variation. The interactions of multiple mutations can have important effects on fitness and evolutionary trajectories. We have recently described the distribution of fitness effects of all single mutations for a nin ...

Oxford Univ Press2015