UShER is a program for rapid, accurate placement of samples to existing phylogenies. It is available for downloading here and is updated regularly.

UShER places samples onto a global phylogeny of SARS-CoV-2 genomes. Learning about relationships among user samples, e.g., the number of unique introductions in an area. Rapid sequence quality control.

Usher syndrome (USH) is a common cause of inherited deaf-blindness. Based on the severity and progression of hearing loss, the onset age of retinitis pigmentosa and the varying degree of vestibular function, USH is classified into three subtypes: USH1, USH2, and USH3, with USH3 being the least severe ( Pakarinen et al., 1995 ; Otterstedde et al ...

UShER places your samples onto a regularly updated global phylogenetic tree with such speed that is actually considered a "real-time" phylogenetic placement analysis. In addition to ultra-fast analysis, UShER is designed to enable easy visualization of subtrees containing newly placed sequences through the Nextstrain platform .

2008年8月1日 · Through bacterial artificial chromosome transgenesis, these mice expressed wild-type (WT) Myo7a from their X-chromosome. Tissues of the transgenic female shaker1 mice thus contain mosaics of MYO7A-null and MYO7A-positive cells due to X-inactivation of the X-chromosome with or without the Myo7a transgene, respectively ( 15 ).

Welcome to the manual for UShER package, that includes SARS-CoV-2 Phylogenetics tools UShER, matUtils, matOptimize, RIPPLES, strain_phylogenetics, and others. Please see the table of contents on the sidebar, or click here for a quick tutorial on getting started.

To address the challenge of real-time sample placement, we developed a new tool called Ultrafast Sample placement on Existing tRees (UShER). UShER can place a SARS-CoV-2 sample onto our reference phylogeny in just 0.5 s, which is a 3–4 orders of magnitude improvement over the next fastest tool (Table 1). A part of the increased efficiency of ...

2023年12月28日 · 虽然 SARS-CoV-2 基因组序列的数量增长到超过 1500 万条，但现有 tRees 上的超快速样本放置 (UShER) 工具套件近乎实时地维护了全面的系统发育树。 这一经验以及整个大流行期间的关键性能改进为快速扩展分析提供了宝贵的经验教训。

Visualize your samples on an interactive phylogenetic subtree using Nextstrain. You can quickly evaluate how your samples compare to samples present in a global SARS-CoV-2 or Mpox phylogenetic tree using UShER. To place your samples within a predetermined and updated phylogenetic tree:

2023年12月28日 · While the number of SARS-CoV-2 genome sequences grew to over 15 million, the Ultrafast Sample placement on Existing tRees (UShER) tool suite maintained a comprehensive phylogenetic tree in near...