3 documents found, page 1 of 1
Drivers of HIV-1 transmission
Pineda-Peña, AC; Pingarilho, Marta; Li, Guangdi; Vrancken, Bram; Libin, Pieter; Gomes, Perpétua; Camacho, Ricardo Jorge; Theys, Kristof; Abecasis, ABBACKGROUND: Portugal has one of the most severe HIV-1 epidemics in Western Europe. Two subtypes circulate in parallel since the beginning of the epidemic. Comparing their transmission patterns and its association with transmitted drug resistance (TDR) is important to pinpoint transmission hotspots and to develop evidence-based treatment guidelines. METHODS: Demographic, clinical and genomic data were collected ...
An integrated map of HIV genome-wide variation from a population perspective
Li, Guangdi; Piampongsant, Supinya; Faria, Rodrigues N.; Voet, Arnout; Pineda-Peña, Andrea Clemencia; Khouri, Ricardo; Lemey, PhilippePMID: 25808207 WOS:000350853000001; Background: The HIV pandemic is characterized by extensive genetic variability, which has challenged the development of HIV drugs and vaccines. Although HIV genomes have been classified into different types, groups, subtypes and recombinants, a comprehensive study that maps HIV genome-wide diversity at the population level is still lacking to date. This study aims to characte...
A new ensemble coevolution system for detecting HIV-1 protein coevolution
Li, Guangdi; Theys, Kristof; Verheyen, Jens; Pineda-Peña, Andrea Clemencia; Khouri, Ricardo; Piampongsant, Supinya; Eusébio, Mónica; Ramon, JanPMID: 25564011 WOS:000349705400001; Background: A key challenge in the field of HIV-1 protein evolution is the identification of coevolving amino acids at the molecular level. In the past decades, many sequence-based methods have been designed to detect position-specific coevolution within and between different proteins. However, an ensemble coevolution system that integrates different methods to improve the de...