Infectious Disease

High-throughput transformation of Saccharomyces cerevisiae using liquid handling robots.

Saccharomyces cerevisiae (budding yeast) is a powerful eukaryotic model organism ideally suited to high-throughput genetic analyses, which time and again has yielded insights that further our understanding of cell biology processes conserved in humans. Lithium Acetate (LiAc) transformation of yeast with DNA for the purposes of exogenous protein expression (e.g., plasmids) or genome mutation (e.g.,...

Machine-learning algorithms define pathogen-specific local immune fingerprints in peritoneal dialysis patients with bacterial infections.

The immune system has evolved to sense invading pathogens, control infection, and restore tissue integrity. Despite symptomatic variability in patients, unequivocal evidence that an individual's immune system distinguishes between different organisms and mounts an appropriate response is lacking. We here used a systematic approach to characterize responses to microbiologically well-defined infecti...

Shared Consensus Machine Learning Models for Predicting Blood Stage Malaria Inhibition.

The development of new antimalarial therapies is essential, and lowering the barrier of entry for the screening and discovery of new lead compound cla...

Ontology-based literature mining of E. coli vaccine-associated gene interaction networks.

BACKGROUND: Pathogenic Escherichia coli infections cause various diseases in humans and many animal species. However, with extensive E. coli vaccine r...

Prediction of virus-host infectious association by supervised learning methods.

BACKGROUND: The study of virus-host infectious association is important for understanding the functions and dynamics of microbial communities. Both ce...

An empirical fuzzy multifactor dimensionality reduction method for detecting gene-gene interactions.

BACKGROUND: Detection of gene-gene interaction (GGI) is a key challenge towards solving the problem of missing heritability in genetics. The multifact...

Designing a biochip following multiplex polymerase chain reaction for the detection of Salmonella serovars Typhimurium, Enteritidis, Infantis, Hadar, and Virchow in poultry products.

Salmonella-contaminated foods, especially poultry-derived foods (eggs, chicken meat), are the major source of salmonellosis. Not only in the European ...

Clinical Outcomes in Patients With Gram-Negative Infections Treated With Optimized Dosing Cefepime Over Various Minimum Inhibitory Concentrations.

BACKGROUND: The Clinical and Laboratory Standards Institute (CLSI) revised cefepime interpretive criteria, introducing the susceptible dose-dependent ...

Machine Learning of Global Phosphoproteomic Profiles Enables Discrimination of Direct versus Indirect Kinase Substrates.

Mass spectrometry allows quantification of tens of thousands of phosphorylation sites from minute amounts of cellular material. Despite this wealth of...

Optimization on machine learning based approaches for sentiment analysis on HPV vaccines related tweets.

BACKGROUND: Analysing public opinions on HPV vaccines on social media using machine learning based approaches will help us understand the reasons behi...

Therapeutic indications and other use-case-driven updates in the drug ontology: anti-malarials, anti-hypertensives, opioid analgesics, and a large term request.

BACKGROUND: The Drug Ontology (DrOn) is an OWL2-based representation of drug products and their ingredients, mechanisms of action, strengths, and dose...

Study of Structure-active Relationship for Inhibitors of HIV-1 Integrase LEDGF/p75 Interaction by Machine Learning Methods.

HIV-1 integrase (IN) is a promising target for anti-AIDS therapy, and LEDGF/p75 is proved to enhance the HIV-1 integrase strand transfer activity in v...

Unveiling antimicrobial peptide-generating human proteases using PROTEASIX.

UNLABELLED: Extracting information from peptidomics data is a major current challenge, as endogenous peptides can result from the activity of multiple...

Revealing the inventory of type III effectors in Pantoea agglomerans gall-forming pathovars using draft genome sequences and a machine-learning approach.

Pantoea agglomerans, a widespread epiphytic bacterium, has evolved into a hypersensitive response and pathogenicity (hrp)-dependent and host-specific ...

A novel hypothesis-unbiased method for Gene Ontology enrichment based on transcriptome data.

Gene Ontology (GO) classification of statistically significantly differentially expressed genes is commonly used to interpret transcriptomics data as ...

Evaluation of synergistic anticandidal and apoptotic effects of ferulic acid and caspofungin against Candida albicans.

This study aimed to investigate the synergy between anticandidal and apoptotic effects of ferulic acid and caspofungin against Candida albicans and Ca...

Predicting antimicrobial peptides with improved accuracy by incorporating the compositional, physico-chemical and structural features into Chou's general PseAAC.

Antimicrobial peptides (AMPs) are important components of the innate immune system that have been found to be effective against disease causing pathog...

Accelerating Chart Review Using Automated Methods on Electronic Health Record Data for Postoperative Complications.

Manual Chart Review (MCR) is an important but labor-intensive task for clinical research and quality improvement. In this study, aiming to accelerate ...

Controlling testing volume for respiratory viruses using machine learning and text mining.

Viral testing for pediatric inpatients with respiratory symptoms is common, with considerable associated charges. In an attempt to reduce testing volu...

How do older adults experience and perceive socially assistive robots in aged care: a systematic review of qualitative evidence.

OBJECTIVES: The aim of this review was to gain a better understanding of how older adults experience, perceive, think, and feel about the use of socia...