Publications related to Inferring horizontal gene transfer

Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load

Set-point viral load (SPVL), a common measure of human immunodeficiency virus (HIV)-1 virulence, is partially determined by viral genotype. Epidemiological evidence suggests that this viral property has been under stabilising selection, with a typical opti ...

OXFORD UNIV PRESS2022

Extracting phylogenetic dimensions of coevolution reveals hidden functional signals

Anne-Florence Raphaëlle Bitbol

Despite the structural and functional information contained in the statistical coupling between pairs of residues in a protein, coevolution associated with function is often obscured by artifactual signals such as genetic drift, which shapes a protein's ph ...

NATURE PORTFOLIO2022

Rapid molecular evolution of Spiroplasma symbionts of Drosophila

Bruno Lemaitre, Florent François Masson

Spiroplasma is a genus of Mollicutes whose members include plant pathogens, insect pathogens and endosymbionts of animals. Spiroplasma phenotypes have been repeatedly observed to be spontaneously lost in Drosophila cultures, and several studies have docume ...

MICROBIOLOGY SOC2021

Dissecting HIV Virulence: Heritability of Setpoint Viral Load, CD4+ T Cell Decline and Per-Parasite Pathogenicity

Jacques Fellay, Gabriel Leventhal

Pathogen strains may differ in virulence because they attain different loads in their hosts, or because they induce different disease-causing mechanisms independent of their load. In evolutionary ecology, the latter is referred to as" per-parasite pathogen ...

Oxford University Press2018

A maximum-likelihood approach for building cell-type trees by lifting

Bernard Moret, Philipp Bucher, Yu Lin, Mingfu Shao, Nishanth Ulhas Nair, Paulina Grnarova, Laura Madeleine Hunter

Background: In cell differentiation, a less specialized cell differentiates into a more specialized one, even though all cells in one organism have (almost) the same genome. Epigenetic factors such as histone modifications are known to play a significant r ...

Biomed Central Ltd2016

Study of cell differentiation by phylogenetic analysis using histone modification data

Bernard Moret, Philipp Bucher, Yu Lin, Nishanth Ulhas Nair, Paulina Grnarova, Jelena Antic, Ana Manasovska

Background: In cell differentiation, a cell of a less specialized type becomes one of a more specialized type, even though all cells have the same genome. Transcription factors and epigenetic marks like histone modifications can play a significant role in ...

BioMed Central2014

Mycobacterium leprae genomes from a British medieval leprosy hospital: towards understanding an ancient epidemic

Stewart Cole, Pushpendra Singh

Background: Leprosy has afflicted humankind throughout history leaving evidence in both early texts and the archaeological record. In Britain, leprosy was widespread throughout the Middle Ages until its gradual and unexplained decline between the 14th and ...

Biomed Central Ltd2014

Noise facilitation in associative memories of exponential capacity

Mohammad Amin Shokrollahi, Amin Karbasi, Amir Hesam Salavati

Recent advances in associative memory design through structured pattern sets and graph-based inference al- gorithms have allowed reliable learning and recall of an exponential number of patterns. Although these designs correct external errors in recall, th ...

Mit Press2014

Noise-enhanced associative memories

Mohammad Amin Shokrollahi, Amin Karbasi, Amir Hesam Salavati

Recent advances in associative memory design through structured pattern sets and graph-based inference algorithms have allowed reliable learning and recall of an exponential number of patterns. Although these designs correct external errors in recall, they ...

2013

Chat with Graph Search

Ask any question about EPFL courses, lectures, exercises, research, news, etc. or try the example questions below.

DISCLAIMER: The Graph Chatbot is not programmed to provide explicit or categorical answers to your questions. Rather, it transforms your questions into API requests that are distributed across the various IT services officially administered by EPFL. Its purpose is solely to collect and recommend relevant references to content that you can explore to help you answer your questions.

Inferring horizontal gene transfer

The microbial genomics of glacier-fed streams: adaptations to an extreme ecosystem

Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load

Extracting phylogenetic dimensions of coevolution reveals hidden functional signals

Rapid molecular evolution of Spiroplasma symbionts of Drosophila

Dissecting HIV Virulence: Heritability of Setpoint Viral Load, CD4+ T Cell Decline and Per-Parasite Pathogenicity

A maximum-likelihood approach for building cell-type trees by lifting

Study of cell differentiation by phylogenetic analysis using histone modification data

Mycobacterium leprae genomes from a British medieval leprosy hospital: towards understanding an ancient epidemic

Noise facilitation in associative memories of exponential capacity

Noise-enhanced associative memories

Graph Chatbot

Chat with Graph Search

The microbial genomics of glacier-fed streams: adaptations to an extreme ecosystem

Extracting phylogenetic dimensions of coevolution reveals hidden functional signals

Rapid molecular evolution of Spiroplasma symbionts of Drosophila

Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load

Mycobacterium leprae genomes from a British medieval leprosy hospital: towards understanding an ancient epidemic

Dissecting HIV Virulence: Heritability of Setpoint Viral Load, CD4+ T Cell Decline and Per-Parasite Pathogenicity

Noise facilitation in associative memories of exponential capacity

Noise-enhanced associative memories

Study of cell differentiation by phylogenetic analysis using histone modification data

A maximum-likelihood approach for building cell-type trees by lifting