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Systematic biology, ISSN 1063-5157, 02/2019
The coalescent process describes how changes in the size or structure of a population influence the genealogical patterns of sequences sampled from that... 
Journal Article
Scientific Reports, ISSN 2045-2322, 12/2019, Volume 9, Issue 1, pp. 2164 - 8
Despite a dramatic increase in our ability to catalogue variation among pathogen genomes, we have made far fewer advances in using this information to identify... 
APICAL MEMBRANE ANTIGEN-1 | MALARIA VACCINE CANDIDATE | DOMAIN-III | AMA1 | EVOLUTION | GENE | MULTIDISCIPLINARY SCIENCES | SURFACE-PROTEINS | PLASMODIUM | INHIBITORY ANTIBODIES | STRAIN STRUCTURE | Pathogens | Malaria | Genetic analysis | Erythrocytes | Serotypes | Genomes | Epitopes | Phylogeny | AMA-1 protein | Population genetics | Antigenic variants
Journal Article
Bioinformatics, ISSN 1367-4803, 11/2018, Volume 34, Issue 21, pp. 3638 - 3645
Abstract Motivation Inferring the rates of change of a population from a reconstructed phylogeny of genetic sequences is a central problem in... 
COALESCENT | DIVERSIFICATION | TREES | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | BIOCHEMICAL RESEARCH METHODS | MATHEMATICAL & COMPUTATIONAL BIOLOGY | TIME | MOLECULAR PHYLOGENIES | EXTINCTION RATES | INFERRING SPECIATION | FOSSILS | RECONSTRUCTED EVOLUTIONARY PROCESS
Journal Article
Proceedings of the Royal Society B: Biological Sciences, ISSN 0962-8452, 10/2018, Volume 285, Issue 1888, p. 20180991
Throughout history, humans have been afflicted by parasitic worms, and eggs are readily detected in archaeological deposits. This study integrated... 
archaeology | ancient DNA | genetics | trade | diet | parasitology | SEQUENCES | FALCIPARUM | TUBERCULOSIS | CHAGAS-DISEASE | MITOCHONDRIAL-DNA | PLEISTOCENE SEDIMENTS | EVOLUTIONARY BIOLOGY | INTESTINAL PARASITES | YERSINIA-PESTIS | MUMMY | BIOLOGY | ECOLOGY | 144 | 1001 | Palaeobiology | 197 | 87
Journal Article
PLoS Computational Biology, ISSN 1553-734X, 01/2016, Volume 12, Issue 1
  Analysis of HIV-1 gene sequences sampled longitudinally from infected individuals can reveal the evolutionary dynamics that underlie associations between... 
Datasets | Studies | Pediatrics | Funding | Human immunodeficiency virus--HIV | Genes | Population | Evolution | Infections | Mutation | Viral infections | Adaptation
Journal Article
AIDS, ISSN 0269-9370, 03/2017, Volume 31, Issue 9, p. 1211
Understanding HIV-1 transmission dynamics is relevant to both screening and intervention strategies of HIV-1 infection. Commonly, HIV-1 transmission chains are... 
Clinical Medicine | Medical and Health Sciences | Medicin och hälsovetenskap | Infektionsmedicin | Infectious Medicine | Klinisk medicin
Journal Article
Proceedings: Biological Sciences, ISSN 0962-8452, 12/2015, Volume 282, Issue 1821, pp. 1 - 10
The frequency and global impact of infectious disease outbreaks, particularly those caused by emerging viruses, demonstrate the need for a better understanding... 
Review
Journal Article
Hepatology, ISSN 0270-9139, 01/2015, Volume 61, Issue 1, pp. 77 - 87
Hepatitis C virus (HCV) exhibits high genetic diversity, characterized by regional variations in genotype prevalence. This poses a challenge to the improved... 
SEQUENCE-ANALYSIS | TRANSMISSION | SOFOSBUVIR | INFECTION | DACLATASVIR | RIBAVIRIN | GASTROENTEROLOGY & HEPATOLOGY | VIRAL-HEPATITIS | BURDEN | TREATMENT-NAIVE PATIENTS | EPIDEMIOLOGY | Prevalence | Internationality | Hepatitis C - epidemiology | Humans | Hepatitis C - virology | Hepacivirus - genetics | Genotype | Hepatitis | Genotype & phenotype | Genetic diversity | Index Medicus | Viral Hepatitis
Journal Article
by Faria, Nuno Rodrigues and Do Socorro Da Silva Azevedo, Raimunda and Kraemer, Moritz U. G and Souza, Renato and Cunha, Mariana Sequetin and Hill, Sarah C and Thézé, Julien and Bonsall, Michael B and Bowden, Thomas A and Rissanen, Ilona and Rocco, Iray Maria and Nogueira, Juliana Silva and Maeda, Adriana Yurika and Da Silva Vasami, Fernanda Giseli and De Lima Macedo, Fernando Luiz and Suzuki, Akemi and Rodrigues, Sueli Guerreiro and Cruz, Ana Cecilia Ribeiro and Nunes, Bruno Tardeli and De Almeida Medeiros, Daniele Barbosa and Rodrigues, Daniela Sueli Guerreiro and Queiroz, Alice Louize Nunes and Da Silva, Eliana Vieira Pinto and Henriques, Daniele Freitas and Da Rosa, Elisabeth Salbe Travassos and De Oliveira, Consuelo Silva and Martins, Livia Caricio and Vasconcelos, Helena Baldez and Casseb, Livia Medeiros Neves and De Brito Simith, Darlene and Messina, Jane P and Abade, Leandro and Lourenço, José and Alcantara, Luiz Carlos and De Lima, Maricélia Maia and Giovanetti, Marta and Hay, Simon I and De Oliveira, Rodrigo Santos and Da Silva Lemos, Poliana and De Oliveira, Layanna Freitas and De Lima, Clayton Pereira Silva and Da Silva, Sandro Patroca and De Vasconcelos, Janaina Mota and Franco, Luciano and Cardoso, Jedson Ferreira and Da Silva Gonçalves Vianez-Júnior, João Lídio and Mir, Daiana and Bello, Gonzalo and Delatorre, Edson and Khan, Kamran and Creatore, Marisa and Coelho, Giovanini Evelim and De Oliveira, Wanderson Kleber and Tesh, Robert and Pybus, Oliver G and Nunes, Marcio R. T and Vasconcelos, Pedro F. C
Science, ISSN 0036-8075, 04/2016, Volume 352, Issue 6283, pp. 345 - 349
Journal Article
Genome Medicine, 06/2018, Volume 10, Issue 1
Journal Article
Journal Article
Hepatology, ISSN 0270-9139, 01/2015, Volume 61, Issue 1, pp. 77 - 87
Journal Article
Infection, Genetics and Evolution, ISSN 1567-1348, 2008, Volume 8, Issue 3, pp. 239 - 246
Journal Article