Carbapenemase-producing Enterobacterales (CPE) are considered among the highest threats to global health by WHO. Their detection is difficult and time-consuming. We developed a random-forest machine learning (ML) model, CarbaDetector, to predict carb...
Antimicrobial resistance (AMR) in enterica serotype Kentucky ( Kentucky) is a global challenge, with increasing resistance to cephalosporins, ciprofloxacin, and carbapenems significantly limiting treatment strategies, yet its worldwide dissemination...
Antimicrobial agents and chemotherapy
Oct 31, 2025
While associations of antibiotic resistance traits are not random in multidrug-resistant (MDR) bacteria, clinically relevant resistance patterns remain underexplored. This study used association-set mining to explore resistance associations within i...
Proceedings of the National Academy of Sciences of the United States of America
Oct 16, 2025
Deep learning has advanced our ability to assess the effects that individual mutations have on protein function; however, predicting the complex interplay between two or more mutations remains challenging. Here, we seek to address this challenge by b...
Molecular genetics and genomics : MGG
Sep 29, 2025
Antimicrobial resistance (AMR) presents a critical global challenge, causing over 1.27 million deaths annually, with projections reaching 10 million by 2050. Among the most concerning contributors are Enterobacteriaceae, particularly Escherichia coli...
Extended-spectrum β-lactamases in Escherichia coli poses a significant threat for clinicians in tertiary healthcare settings, rendering treatments ineffective with newer β-lactam-β-lactamase inhibitors combinations. To overcome this, the present stud...
Proceedings of the National Academy of Sciences of the United States of America
Sep 17, 2025
Deep mutational scanning (DMS) assays provide a powerful method to generate large-scale datasets essential for advancing AI-driven predictions in biology. The tripartite β-lactamase assay (TPBLA), in which a protein of interest is inserted between tw...
Metabolomics : Official journal of the Metabolomic Society
Aug 12, 2025
INTRODUCTION: The degree of antimicrobial resistance demonstrated by carbapenemase-producing Enterobacterales (CPE) represents a growing public health challenge. Conventional methods for detecting CPE involve culture-based techniques with lengthy inc...
Engineering yeast to secrete target proteins requires searching for optimal combinations of promoters and signal peptides so that genes can be composed that give a high expression and efficient secretion. Most methods for this involve laborious, one-...
The global rise of antibiotic-resistant infections has been driven in part by the spread of bacteria producing metallo-β-lactamase (MBL), particularly New Delhi metallo-β-lactamase-1 (NDM-1). Currently, there are no clinically approved inhibitors tar...
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