Bacterial Identification and Susceptibility Testing

Robust machine learning for Clostridioides difficile typing from mass spectrometry via data augmentation

This study improves ML-based C. difficile typing from MALDI-TOF MS spectra by using data augmentation to reduce performance variability across different experimental conditions.

Effect of Data Heterogeneity in Clinical MALDI-TOF Mass Spectra Profiles on Direct Antimicrobial Resistance Prediction through Machine Learning

The paper introduces a large mass spectra dataset for antimicrobial resistance prediction, evaluates its performance, and analyzes the impact of data heterogeneity on machine learning models.

Measuring autofluorescence spectral signatures for detecting antibiotic-resistant bacteria using Bigfoot spectral flow cytometer

This paper uses spectral flow cytometry to detect antibiotic-resistant bacteria by analyzing autofluorescence signatures, showing differences between resistant and susceptible strains.

Improved MALDI-TOF MS based antimicrobial resistance prediction through hierarchical stratification

The paper improves antimicrobial resistance prediction using MALDI-TOF MS by incorporating phylogenetic structure through hierarchical clustering, increasing average precision for specific resistance predictions.

Evaluation of the Performance of Filmarray Blood Culture Identification Panel on Detecting Blood Cultures Containing Activated Carbon Powder

This study evaluates the FilmArray BCID panel's accuracy in detecting pathogens in blood cultures with activated carbon powder, finding high consistency with clinical methods.

Clinically applicable rapid susceptibility testing of multi-drug resistant Staphylococcus aureus by mass spectrometry and extreme gradient boosting machine

This study uses mass spectrometry and machine learning to predict antibiotic susceptibility of Staphylococcus aureus, enabling faster and more accurate treatment decisions.

Detection of ESKAPE pathogens and Clostridioides difficile in Simulated Skin Transmission Events with Metagenomic and Metatranscriptomic Sequencing

This study evaluates NGS-based methods for detecting healthcare-acquired pathogens in simulated skin transmission events using metagenomic and metatranscriptomic sequencing.

Bac-PULCE: Bacterial Strain and AMR Profiling Using Long Reads via CRISPR Enrichment

Bac-PULCE enables rapid bacterial strain and AMR profiling using CRISPR-based enrichment and long-read sequencing with minimal infrastructure.

Metagenomic Next-generation Sequencing of Cerebrospinal Fluid for the Diagnosis of Central Nervous System Infections: A Multicentre Prospective Study

This study evaluates metagenomic next-generation sequencing (mNGS) of cerebrospinal fluid for diagnosing central nervous system infections, finding it detects pathogens in 36.6% of cases with some false positives and negatives.

Evaluating an Upper Respiratory Disease Panel on the Portable MinION Sequencer

This study evaluates the MinION sequencer's ability to identify and differentiate upper respiratory disease pathogens using targeted and whole genome sequencing, achieving strain-level accuracy despite sequencing errors.

Toward Rapid Sequenced-Based Detection and Characterization of Causative Agents of Bacteremia

This paper develops a rapid workflow for detecting and characterizing bacteremia pathogens using metagenomic sequencing and targeted PCR, achieving sensitivities of 1x10^6 and 1x10^5 cells/mL for untargeted and targeted detection, respectively.

Fast Antibiotic Susceptibility Testing based on single cell growth rate measurements

The paper presents a fast antibiotic susceptibility testing method that determines bacterial growth rate responses to antibiotics in under 25 minutes using microfluidic imaging.