Host Genomics of the HIV-1 Reservoir Size and Its Decay Rate During Suppressive Antiretroviral Treatment

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The herpes simplex virus (HSV) is associated with serious conditions, such as encephalitis and blindness, and its infection is closely linked to significant vascular complications and coagulation issues, particularly in individuals with compromised immune ...

Viral metagenomics is a useful tool for detecting multiple human viruses in urban sewage. However, more refined protocols are required for its effective use in disease surveillance. In this study, we investigated the performance of three different preampli ...

Growing evidence indicates that transposable elements (TEs) play important roles in evolution by providing genomes with coding and non-coding sequences. Identification of TE-derived functional elements, however, has relied on TE annotations in individual s ...

High-throughput transcriptomics is of increasing fundamental biological and clinical interest. The generation of molecular data from large collections of samples, such as biobanks and drug libraries, is boosting the development of new biomarkers and treatm ...

Vibrio cholerae has caused seven cholera pandemics in the past two centuries. The seventh and ongoing pandemic has been particularly severe on the African continent. Here, we report long read-based genome sequences of six V. cholerae strains isolated in th ...

How chronic mutational processes and punctuated bursts of DNA damage drive evolution of the cancer genome is poorly understood. Here, we demonstrate a strategy to disentangle and quantify distinct mechanisms underlying genome evolution in single cells, dur ...

Global change exposes ecosystems to changes in the frequency, magnitude, and concomitancy of disturbances, which impact the composition and functioning of these systems. Here, we experimentally evaluate the effects of salinity disturbances and eutrophicati ...

Understanding the ecological impacts of viruses on natural and engineered ecosystems relies on the accurate identification of viral sequences from community sequencing data. To maximize viral recovery from metagenomes, researchers frequently combine viral ...

Cell fate progression of pluripotent progenitors is strictly regulated, resulting in high human cell diversity. Epigenetic modifications also orchestrate cell fate restriction. Unveiling the epigenetic mechanisms underlying human cell diversity has been di ...

The adaptation of organisms to their environment depends on the innovative potential inherent to genetic variation. In complex organisms such as mammals, processes like development and immunity require tight gene regulation. Complex forms emerge more often ...

Some HIV controllers experience immunologic progression with CD4(+) T cell decline. We aimed to identify genetic factors associated with CD4(+) T cell lost in HIV controllers. A total of 561 HIV controllers were included, 442 and 119 from the International ...

Background. Respiratory syncytial virus (RSV) is associated with acute respiratory infection. We sought to identify RSV variants associated with prolonged infection. ...

Automating experimental procedures has resulted in an unprecedented increase in the volume of generated data, which, in turn, has caused an accumulation of unprocessed data. As a result, the need to develop tools to analyze data systematically has been ris ...

Coronary heart disease (CHD) is one of the most pressing health problems of our time and a major cause of preventable death. CHD results from complex interactions between genetic and environmental factors. Using multiplex serological testing for persistent ...

Background and Aims:The clinical spectrum of human infection by HEV ranges from asymptomatic to severe acute hepatitis. Furthermore, HEV can cause diverse neurological manifestations, especially Parsonage-Turner syndrome. Here, we used a large-scale human ...

Benchmarking of scATAC-seq protocols demonstrates the effects of data quality on downstream analyses. ...

The present invention relates generally to the field of nucleic acid sequencing and provides oligonucleotide molecules and barcodes contained therein. These oligonucleotide molecules and barcodes molecules are useful in sequencing to identify and resolve e ...

Introduction: We have reanalyzed the genomic data of the International Collaboration for the Genomics of HIV (ICGH), centering on HIV-1 Elite Controllers.Methods: We performed a genome-wide Association Study comparing 543 HIV Elite Controllers with 3,272 u ...

The local physical properties - such as shape and flexibility - of the DNA double-helix is today widely believed to be influenced by nucleic acid sequence in a non-trivial way. Furthermore, there is strong evidence that these properties play a role in many ...

Regulation of gene expression is a complex but highly guided process. While genomic technologies and computational approaches have allowed high-throughput mapping of cis-regulatory elements (CREs) and their interactions in 3D, their precise role in regulat ...

Host Genomics of the HIV-1 Reservoir Size and Its Decay Rate During Suppressive Antiretroviral Treatment

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Structure-Activity Relationship Studies of Glycosaminoglycan Mimetic Macrocycles Against Herpes

Comparison of Three Viral Nucleic Acid Preamplification Pipelines for Sewage Viral Metagenomics

Ancestral genome reconstruction enhances transposable element annotation by identifying degenerate integrants

Multi-well plate lid for single-step pooling of 96 samples for high-throughput barcode-based sequencing

Genome sequences of Vibrio cholerae strains isolated in the DRC between 2009 and 2012

Single-mitosis dissection of acute and chronic DNA mutagenesis and repair

The cost of adaptability: resource availability constrains functional stability under pulsed disturbances

Benchmarking informatics approaches for virus discovery: caution is needed when combining in silico identification methods

Single-cell epigenomic reconstruction of developmental trajectories from pluripotency in human neural organoid systems

Meeting our Makers: Uncovering the cis-regulatory activity of transposable elements using statistical learning

A metagenome-wide association study of HIV disease progression in HIV controllers

Viral Genetic Determinants of Prolonged Respiratory Syncytial Virus Infection Among Infants in a Healthy Term Birth Cohort

Modeling, analysis, and design of complex biological networks

Associations of genetic and infectious risk factors with coronary heart disease

Inborn errors of type I interferon immunity in patients with symptomatic acute hepatitis E

Systematic benchmarking of single-cell ATAC-sequencing protocols

Optimised set of oligonucleotides for bulk rna barcoding and sequencing

The HLA-B*57:01 allele corresponds to a very large MHC haploblock likely explaining its massive effect for HIV-1 elite control

Landscapes of DNA Mechanics and Genomes

Chromatin modules and their implication in genomic organization and gene regulation