Article

Shortest Unique Representative Hidden Markov Model (SurHMM) for Detecting Protein Toxins, Virulence Factors and Antibiotic Resistance Genes

2021-02-05

Abstract excerpt

<title>Abstract</title> <p>Objective: Currently, next generation sequencing (NGS) is widely used to decode potential novel or variant pathogens both in emergent outbreaks and in routine clinical practice. However, the efficient identification of novel or diverged pathogenomic compositions remains a big challenge. It is especially true for short DNA sequence fragments from NGS, since sequence similarity searching...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: dbd19b54-06bd-55f3-840f-5786a689aa88
DOI: 10.21203/rs.3.rs-185430/v1

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Shortest Unique Representative Hidden Markov Model (SurHMM) for Detecting Protein Toxins, Virulence Factors and Antibiotic Resistance GenesDOI 10.21203/rs.3.rs-185430/v1Read

PathoFact 2.0: An Integrative Pipeline for Predicting Antimicrobial Resistance Genes, Virulence Factors, Toxins and Biosynthetic Gene Clusters in MetagenomesSemantic proximity Read

Shine: A novel strategy to extract specific, sensitive and well-conserved biomarkers from massive microbial genomic datasetsSemantic proximity Read

PathoFact: A pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic dataSemantic proximity Read

Rocker Models for Reliable Detection and Typing of Short Read Sequences Carrying β-lactamasesSemantic proximity Read

HyperVR–A hybrid prediction framework for virulence factors and antibiotic resistance genes in microbial dataSemantic proximity Read

Classification of pathogenic microbes using a minimal set of single nucleotide polymorphisms derived from whole genome sequences.Semantic proximity Read

Pathogenic potential prediction of <i>Vibrio parahaemolyticus</i> by using pangenome data with high performance machine learning algorithmsSemantic proximity Read

Shine: To explore specific, sensitive and conserved biomarkers from massive microbial genomic data within intra-populationsSemantic proximity Read

Exo-Tox: Identifying Exotoxins from secreted bacterial proteinsSemantic proximity Read

Rapid Classification of Multilocus Sequence Subtype for Group B Streptococcus Based on MALDI-TOF Mass Spectrometry and Statistical ModelsSemantic proximity Read

Short k-mer Abundance Profiles Yield Robust Machine Learning Features and Accurate Classifiers for RNA VirusesSemantic proximity Read

Mitag4taxa: Extracting SSU rRNA Illumina reads from metagenomes for taxonomic classificationSemantic proximity Read