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<h4>Objective</h4>To evaluate the impact of discontinuing contact precautions for vancomycin-resistant enterococci (VRE) on strain and plasmid transmission using long-read whole-genome sequencing (WGS).<h4>Study design</h4>Before-after trial of adults with <i>Enterococcus</i> bloodstream infections pre-(Jan-Oct 2021) and post-(Oct-Dec 2021 …
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Read PDFFrontotemporal dementia represents a group of clinical syndromes characterized by progressive changes in behavior or language that are associated with frontotemporal lobe atrophy. Around 40% of FTD cases are familial, with mutations in <i>MAPT</i> representing …
Read PDFAlthough numerous algorithms have been developed to identify structural variations (SVs) in genomic sequences, there is a dearth of approaches that can be used to evaluate their results. This is significant as the accurate identification …
Read PDFSpeciation is a key driver of biodiversity and understanding its genomic underpinnings can be important for predicting and managing biodiversity. Structural variants (SVs) are large-scale (> 50 bp) changes in the genome and have been …
Read PDFChronic kidney disease (CKD) represents a significant global health burden, with diverse etiologies and often complex clinical presentations. Among these, a notable subset of CKD patients present without a clear underlying cause despite extensive diagnostic …
Read PDF<i>Stutzerimonas balearica</i> strain JWOYS.421 was recovered from the shell of a Hong Kong oyster (<i>Magallana hongkongensis</i>) collected from coastal waters in Hong Kong. Its complete genome, a single circular chromosome of 4,405,581 bp (64.80% G+C), …
Read PDF<i>Oleidesulfovibrio alaskensis</i> G20 is a gram-negative, mesophilic, sulfate-reducing bacterium known for its biofilm-forming and bio-corroding characteristics. A total of 173 new gene annotations have been identified, encoding electron transportation proteins, among others. These genes are …
Read PDF<h4>Background</h4>Ammopiptanthus nanus is a rare broad-leaved shrub that is found in the desert and arid regions of Central Asia. This plant species exhibits extremely high tolerance to drought and freezing and has been used in …
Read PDFAmplification of a CAG trinucleotide motif (CTG18.1) within the TCF4 gene has been strongly associated with Fuchs Endothelial Corneal Dystrophy (FECD). Nevertheless, a small minority of clinically unaffected elderly patients who have expanded CTG18.1 sequences …
Read PDFThe reference genomes of <i>Bombyx mori</i> (<i>B. mori</i>), Silkworm Knowledge-based database (SilkDB) and SilkBase, have served as the gold standard for nearly two decades. Their use has fundamentally shaped model organisms and accelerated relevant studies …
Read PDF<i>Drosophila melanogaster</i> is a powerful model system to study histone gene regulation. However, <i>D. melanogaster</i> histone coding sequences are nearly identical, constraining use of this model in elucidating the regulation of individual members of this …
Read PDFSingle-molecule long-read sequencing datasets were generated for a son-father-mother trio of Han Chinese descent that is part of the Genome in a Bottle (GIAB) consortium portfolio. The dataset was generated using the Pacific Biosciences Sequel …
Read PDFCurrently, different sequencing platforms are used to generate plant genomes and no workflow has been properly developed to optimize time, cost, and assembly quality. We present LeafGo, a complete de novo plant genome workflow, that …
Read PDFSperm contributes diverse RNAs to the zygote. While sperm small RNAs have been shown to impact offspring phenotypes, our knowledge of the sperm transcriptome, especially the composition of long RNAs, has been limited by the …
Read PDF<h4>Background</h4>Short tandem repeat (STR), or "microsatellite", is a tract of DNA in which a specific motif (typically < 10 base pairs) is repeated multiple times. STRs are abundant throughout the human genome, and specific repeat …
Read PDF<h4>Background</h4>Long-read sequencing has great promise in enabling portable, rapid molecular-assisted cancer diagnoses. A key challenge in democratizing long-read sequencing technology in the biomedical and clinical community is the lack of graphical bioinformatics software tools which …
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