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The phylogenetic handbook : a practical approach to DNA and protein phylogeny
TLDR
A network based tool for exploring evolutionary relationships in molecular data and data exploration and tetrapod phylogeny using DAMBE, and Detecting recombination in viral sequences Mika Salminen.
Drug Resistance Mutations for Surveillance of Transmitted HIV-1 Drug-Resistance: 2009 Update
TLDR
This paper follows the same procedures described previously to develop an updated list of SDRMs that are likely to be useful for ongoing and future studies of transmitted drug resistance and concludes that the updated SDRM list has 93 mutations.
The Phylogenetic Handbook: A Practical Approach to Phylogenetic Analysis and Hypothesis Testing
TLDR
The author revealed that Split networks: a tool for exploring complex evolutionary relationships in molecular data Vincent Moulton and Katharina T. Huber were a new concept that had not been seen in the literature before and provided a new impetus for the development of Bayesian evolutionary analysis.
Complete Genomic Sequence of Human Coronavirus OC43: Molecular Clock Analysis Suggests a Relatively Recent Zoonotic Coronavirus Transmission Event
TLDR
This is the first animal-human zoonotic pair of coronaviruses that can be analyzed in order to gain insights into the processes of adaptation of a nonhuman coronavirus to a human host, which is important for understanding the interspecies transmission events that led to the origin of the severe acute respiratory syndrome outbreak.
Tracing the origin and history of the HIV-2 epidemic
TLDR
The analysis provides evidence for a zoonotic transfer of HIV-2 during the first half of the 20th century and an epidemic initiation in Guinea-Bissau that coincides with the independence war, suggesting that war-related changes in sociocultural patterns had a major impact on the HIV- 2 epidemic.
An automated genotyping system for analysis of HIV-1 and other microbial sequences
TLDR
The development of an automated genotyping system that can be easily applied to HIV-1 and other rapidly evolving viral pathogens is described.
Prevalence of drug-resistant HIV-1 variants in untreated individuals in Europe: implications for clinical management.
BACKGROUND Infection with drug-resistant human immunodeficiency virus type 1 (HIV-1) can impair the response to combination therapy. Widespread transmission of drug-resistant variants has the
DEB025 (Alisporivir) Inhibits Hepatitis C Virus Replication by Preventing a Cyclophilin A Induced Cis-Trans Isomerisation in Domain II of NS5A
TLDR
It was very difficult to select resistant replicons (genotype 1b) to DEB025, requiring an average of 20 weeks (four independent experiments), compared to the typically <2 weeks with protease or polymerase inhibitors, indicating a high genetic barrier to resistance forDEB025.
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