Small regulatory RNAs (sRNAs) are widespread in bacteria. However, characterizing the targets of sRNA regulation in a way that scales with the increasing number of identified sRNAs has proven challenging. Computational methods offer one means for eff...
The hydrothermal-calcination technique was used to modify raw sand with silver (Ag) at different weight percentages: 2%, 5%, and 10% using silver nitrate. The raw and sand-coated Ag nanoparticle samples were analyzed using various techniques, includi...
Frontiers in cellular and infection microbiology
40308970
OBJECTIVES: Urinary tract infection is one of the most prevalent forms of bacterial infection, and prompt and efficient identification of pathogenic bacteria plays a pivotal role in the management of urinary tract infections. In this study, we propos...
Developing effective antibiotics against Gram-negative bacteria remains challenging due to their protective outer membrane. With this study, we investigated the relationship between antibiotic permeation through the OmpF porin of and antimicrobial e...
Physica medica : PM : an international journal devoted to the applications of physics to medicine and biology : official journal of the Italian Association of Biomedical Physics (AIFB)
40117723
PURPOSE: This study aims to develop a comprehensive simulation framework to connect radiation effects from the microscopic to the nanoscopic scale.
Bacterial detection and classification are critical challenges in healthcare, environmental monitoring, and food safety, demanding selective and efficient methods. This study presents a novel, label-free approach for E. coli detection using ultrathin...
The bacterial cell division protein FtsZ, a crucial GTPase, plays a vital role in the formation of the contractile Z-ring, which is essential for bacterial cytokinesis. Consequently, inhibiting FtsZ could prevent the formation of proto-filaments and ...
This study presents a comprehensive approach to predicting solubility of recombinant protein in four E. coli samples by employing machine learning techniques and optimization algorithms. Various models, including AdaBoost, Decision Tree Regression (D...
Journal of chemical theory and computation
40211504
This work introduces LEGOLAS, a fully open source TorchANI-based neural network model designed to predict NMR chemical shifts for protein backbone atoms (N, Cα, Cβ, C', HN, Hα). LEGOLAS has been designed to be fast without loss of accuracy, as our mo...
The DNA binding of most Escherichia coli Transcription Factors (TFs) has not been comprehensively mapped, and few have models that can quantitatively predict binding affinity. We report the global mapping of in vivo DNA binding for 139 E. coli TFs us...