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Bacteria

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A NLP Pipeline for the Automatic Extraction of Microorganisms Names from Microbiological Notes.

Studies in health technology and informatics
According to the "Istituto Superiore di Sanita'" (ISS), hospital infections are the most frequent and serious complication of health care. This constitutes a real health emergency which requires incisive and joint action at all levels of the local an...

Comprehensive assessment of machine learning-based methods for predicting antimicrobial peptides.

Briefings in bioinformatics
Antimicrobial peptides (AMPs) are a unique and diverse group of molecules that play a crucial role in a myriad of biological processes and cellular functions. AMP-related studies have become increasingly popular in recent years due to antimicrobial r...

Prediction of prokaryotic transposases from protein features with machine learning approaches.

Microbial genomics
Identification of prokaryotic transposases (Tnps) not only gives insight into the spread of antibiotic resistance and virulence but the process of DNA movement. This study aimed to develop a classifier for predicting Tnps in bacteria and archaea usin...

DeepVF: a deep learning-based hybrid framework for identifying virulence factors using the stacking strategy.

Briefings in bioinformatics
Virulence factors (VFs) enable pathogens to infect their hosts. A wealth of individual, disease-focused studies has identified a wide variety of VFs, and the growing mass of bacterial genome sequence data provides an opportunity for computational met...

Four Biomarkers-Based Artificial Neural Network Model for Accurate Early Prediction of Bacteremia with Low-level Procalcitonin.

Annals of clinical and laboratory science
OBJECTIVE: Procalcitonin levels above 2.0 ng/mL are associated with a higher risk of severe sepsis. Bacteremia with procalcitonin levels lower than 2.0 ng/mL has not received much attention, and relevant prediction models are lacking. Herein, a panel...

Predicting bacterial virulence factors - evaluation of machine learning and negative data strategies.

Briefings in bioinformatics
Bacterial proteins dubbed virulence factors (VFs) are a highly diverse group of sequences, whose only obvious commonality is the very property of being, more or less directly, involved in virulence. It is therefore tempting to speculate whether their...

In vitro cytotoxic, antioxidant, antibacterial and antifungal activity of Saussurea heteromalla indigenous to Pakistan.

Pakistan journal of pharmaceutical sciences
Medicinal plants are proven to reveal vast promising potential providing novel drug candidates to combat health-related problems. The aim of current study is to discover new drug compounds with anti-anticancer, antioxidant, antibacterial and antifung...

Microfluidic cap-to-dispense (μCD): a universal microfluidic-robotic interface for automated pipette-free high-precision liquid handling.

Lab on a chip
Microfluidic devices have been increasingly used for low-volume liquid handling operations. However, laboratory automation of such delicate devices has lagged behind due to the lack of world-to-chip (macro-to-micro) interfaces. In this paper, we have...

BacPaCS-Bacterial Pathogenicity Classification via Sparse-SVM.

Bioinformatics (Oxford, England)
MOTIVATION: Bacterial infections are a major cause of illness worldwide. However, most bacterial strains pose no threat to human health and may even be beneficial. Thus, developing powerful diagnostic bioinformatic tools that differentiate pathogenic...