Latest AI and machine learning research in bacterial infection for healthcare professionals.
Background Bacterial fitness is shaped by interactions between genome variation and environmental context, yet how these interactions determine its predictability and heritability remains unclear. In the clinically important pathogens of Klebsiella pneumoniae, a leading cause of hospital-acquired infections, this question is particularly pressing. Despite extensive genomic characterization, we sti...
Gut bacteria shape the metabolism of their host and play an important role in human health. However, systems biology approaches to study their intracellular metabolic fluxes are largely underdeveloped. We present an experimental and computational workflow to quantify metabolic flux ratios in gut bacteria using 13C-labeled nutrient supplementation and a newly developed machine learning-based Flux R...
Background: Bioinformatic tools often require the prediction of protein-coding genes to make inferences about prokaryotic genomes. Typically, the gene...
Background: Multi-drug resistant Bacterial (MDRB) Infections in the intensive care units (ICUs) substantially elevate patient mortality, prolong hospi...
Background Root competence, the ability of soil bacteria to establish and grow on plant roots, is a key ecological trait influencing plant nutrition, ...
Bacteriophage therapy offers a potential route to treat antibiotic-resistant Klebsiella pneumoniae infections, but its use is limited by the narrow sp...
Background: Recurrent urinary tract infections(rUTI) represent a major clinical challenge due to persistent clinical symptoms, repeated antibiotic exp...
Background Community-wide active case-finding (ACF) is being increasingly implemented as a tuberculosis (TB) elimination intervention. However, conven...
Accurate prediction of effector proteins secreted by Gram-negative bacteria is important for elucidating bacterial pathogenic mechanisms and developin...
The rise of antibiotic-resistant bacterial infections has driven renewed interest in bacteriophage therapy, where viruses that specifically kill bacte...
Aptamers are single stranded DNA or RNA molecules selected for their high affinity and specificity to bind target molecules, similar to antibodies. Th...
Molecular diagnostics to detect Vibrio cholerae (Vc) may be negatively impacted by pathogen-specific lytic bacteriophage (phage) predation. To address...
Motivation: Accurately modelling how microbial communities assemble and change across hosts and environments is essential for analysis and interventio...
Manual colony counting remains the rate-limiting, operator-dependent step in culture-based food microbiology quality control (QC). Automated colony an...
Treponema pallidum ssp. pallidum, the causative agent of syphilis, has a small proteome and encompasses numerous strains. Knowledge gaps remain in und...
Transformer models enable functionally meaningful representation of complex biological data, such as nucleotide or protein sequences. Existing foundat...
Antimicrobial peptides (AMPs) are promising therapeutic candidates against rising antimicrobial resistance, yet progress in AMP prediction is hampered...
Generalizable protein-expression prediction can accelerate protein engineering, inform disease mechanisms, and help optimize heterologous recombinant ...
Automated bacterial colony counting from images is an important technique to obtain data required for the development of vaccines and antibiotics. How...
Bacterial identification, antimicrobial resistance prediction, and strain typification are critical tasks in clinical microbiology, essential for guid...