Publications by Amalio Telenti

Functional characterization of 3D protein structures informed by human genetic diversity

Amalio Telenti, Istvan Bartha, Julia di Iulio

Sequence variation data of the human proteome can be used to analyze 3D protein structures to derive functional insights. We used genetic variant data from nearly 140,000 individuals to analyze 3D positional conservation in 4,715 proteins and 3,951 homolog ...

National Academy of Sciences2019

GenoShare: Supporting Privacy-Informed Decisions for Sharing Exact Genomic Data

Jean-Pierre Hubaux, Jean Louis Raisaro, Carmela González Troncoso, Mathias Jacques Jean-Marc Humbert, Amalio Telenti

The academic community has proposed many solutions to address the privacy concerns associated with genomic-data sharing. However, practitioners have not adopted these solutions due to their impact on the data utility. To address this problem, we introduce ...

EPFL infoscience2018

Severe viral respiratory infections in children with IFIH1 loss-of-function mutations

Jacques Fellay, Amalio Telenti, Istvan Bartha, Christian Hammer, Samira Asgari, Thomas Junier, Paul Jack Mc Laren

Viral respiratory infections are usually mild and self-limiting; still they exceptionally result in life-threatening infections in previously healthy children. To investigate a potential genetic cause, we recruited 120 previously healthy children requiring ...

Natl Acad Sciences2017

Estimating the Respective Contributions of Human and Viral Genetic Variation to HIV Control

Jacques Fellay, Amalio Telenti, Istvan Bartha, Paul Jack Mc Laren

We evaluated the fraction of variation in HIV-1 set point viral load attributable to viral or human genetic factors by using joint host/pathogen genetic data from 541 HIV infected individuals. We show that viral genetic diversity explains 29% of the variat ...

Public Library of Science2017

Privacy-enhancing technologies for medical tests using genomic data

Jean-Pierre Hubaux, Jacques Fellay, Erman Ayday, Jacques Rougemont, Jean Louis Raisaro, Mathias Jacques Jean-Marc Humbert, Amalio Telenti

In this invention, we propose privacy-enhancing technologies for medical tests and personalized medicine methods, which utilize patients' genomic data. Assuming the whole genome sequencing is done by a certified institution, we propose to store patients' g ...

2016

Privacy-preserving genomic testing in the clinic: a model using HIV treatment

Jean-Pierre Hubaux, Jacques Fellay, Paul Jack Mc Laren, Amalio Telenti, Erman Ayday, Jean Louis Raisaro, Istvan Bartha

The implementation of genomic-based medicine is hindered by unresolved questions regarding data privacy and delivery of interpreted results to health-care practitioners. We used DNA-based prediction of HIV-related outcomes as a model to explore critical is ...

Nature Publishing Group2016

Method for privacy-preserving medical risk test

Jean-Pierre Hubaux, Amalio Telenti, Erman Ayday, Paul Jack Mc Laren, Jean Louis Raisaro

A privacy-preserving method for performing a disease susceptibility test on a patient, said method comprising: (I) performing homomorphic computations, (J) obtaining a test result which is partly decrypted with a first part (prk1 resp. prk2) of a private k ...

2016

Identification of Siglec-1 null individuals infected with HIV-1

Jacques Fellay, Amalio Telenti, Paul Jack Mc Laren

Siglec-1/CD169 is a myeloid-cell surface receptor critical for HIV-1 capture and infection of bystander target cells. To dissect the role of SIGLEC1 in natura, we scan a large population genetic database and identify a loss-of-function variant (Glu88Ter) t ...

Nature Publishing Group2016

Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses

Amalio Telenti, Paul Jack Mc Laren, Danielle Thompson, Daniel Sauter, Jérémie Perreaud

Background: Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction ...

Biomed Central Ltd2015

Polymorphisms of large effect explain the majority of the host genetic contribution to variation of HIV-1 virus load

Jacques Fellay, Amalio Telenti, Istvan Bartha, Paul Jack Mc Laren

Previous genome-wide association studies (GWAS) of HIV-1-infected populations have been underpowered to detect common variants with moderate impact on disease outcome and have not assessed the phenotypic variance explained by genome-wide additive effects. ...

National Academy of Sciences2015