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Implementation and outcomes of a rapid response genomic hospital epidemiology programme at an academic medical centre over 7 years Open
Advances in genomic technologies have revolutionised practices for hospital infection prevention and control programmes. In this Personal View, we describe a genomic epidemiology service called the Rapid Response (RR) programme at Universi…
View article: Whole-genome sequencing rule-out of suspected hospital-onset <i>Rhizopus</i> outbreaks
Whole-genome sequencing rule-out of suspected hospital-onset <i>Rhizopus</i> outbreaks Open
Two independent temporal-spatial clusters of hospital-onset Rhizopus infections were evaluated using whole-genome sequencing (WGS). Phylogenetic analysis confirmed that isolates within each cluster were unrelated despite epidemiological su…
AIRRscape: An interactive tool for exploring B-cell receptor repertoires and antibody responses Open
The sequencing of antibody repertoires of B-cells at increasing coverage and depth has led to the identification of vast numbers of immunoglobulin heavy and light chains. However, the size and complexity of these Adaptive Immune Receptor R…
ortho_seqs: A Python tool for sequence analysis and higher order sequence–phenotype mapping Open
Motivation An important goal in sequence analysis is to understand how parts of DNA, RNA, or protein sequences interact with each other and to predict how these interactions result in given phenotypes. Mapping phenotypes onto underlying se…
AIRRscape: an interactive tool for exploring B-cell receptor repertoires and antibody responses Open
The sequencing of antibody repertoires of B-cells at increasing coverage and depth has led to the identification of vast numbers of immunoglobulin heavy and light chains. However, the size and complexity of these Adaptive Immune Receptor R…
Single-cell transcriptomics for the 99.9% of species without reference genomes Open
Single-cell RNA-seq (scRNA-seq) is a powerful tool for cell type identification but is not readily applicable to organisms without well-annotated reference genomes. Of the approximately 10 million animal species predicted to exist on Earth…
Analyzing genomic data using tensor-based orthogonal polynomials with application to synthetic RNAs Open
An important goal in molecular biology is to quantify both the patterns across a genomic sequence and the relationship between phenotype and underlying sequence. We propose a multivariate tensor-based orthogonal polynomial approach to char…
nf-core/kmermaid: Pre release for v0.1.0 Open
k-mer similarity analysis pipeline
A classification system for assessment and home monitoring of tremor in patients with Parkinson's disease Open
The accuracy result of both implemented systems on MATLAB and microcontroller is acceptable in comparison with the previous works.
A classification system for assessment and home monitoring of tremor in patients with Parkinson's disease Open
Background: Tremor is one of the most common symptoms of Parkinson's disease (PD), which is widely being used in the diagnosis procedure. Accurate estimation of PD tremor based on Unified PD Rating Scale (UPDRS) provides aid for physicians…