Artificial Intelligence-Assisted Comparative Analysis of the Overlapping Molecular Pathophysiology of Alzheimer's Disease, Amyotrophic Lateral Sclerosis, and Frontotemporal Dementia.

The overlapping molecular pathophysiology of Alzheimer's Disease (AD), Amyotrophic Lateral Sclerosis (ALS), and Frontotemporal Dementia (FTD) was analyzed using relationships from a knowledge graph of 33+ million biomedical journal articles. The unsupervised learning rank aggregation algorithm from SemNet 2.0 compared the most important amino acid, peptide, and protein (AAPP) nodes connected to AD, ALS, or FTD.

A Comprehensive Evaluation of Biomedical Entity Linking Models.

Biomedical entity linking (BioEL) is the process of connecting entities referenced in documents to entries in biomedical databases such as the Unified Medical Language System (UMLS) or Medical Subject Headings (MeSH). The study objective was to comprehensively evaluate nine recent state-of-the-art biomedical entity linking models under a unified framework. We compare these models along axes of (1) accuracy, (2) speed, (3) ease of use, (4) generalization, and (5) adaptability to new ontologies and datasets.

BioSift: A Dataset for Filtering Biomedical Abstracts for Drug Repurposing and Clinical Meta-Analysis.

This work presents a new, original document classification dataset, BioSift, to expedite the initial selection and labeling of studies for drug repurposing. The dataset consists of 10,000 human-annotated abstracts from scientific articles in PubMed. Each abstract is labeled with up to eight attributes necessary to perform meta-analysis utilizing the popular patient-intervention-comparator-outcome (PICO) method: has human subjects, is clinical trial/cohort, has population size, has target disease, has study drug, has comparator group, has a quantitative outcome, and an "aggregate" label.

Cross-Domain Text Mining of Pathophysiological Processes Associated with Diabetic Kidney Disease.

Diabetic kidney disease (DKD) is the leading cause of end-stage renal disease worldwide. This study's goal was to identify the signaling drivers and pathways that modulate glomerular endothelial dysfunction in DKD via artificial intelligence-enabled literature-based discovery. Cross-domain text mining of 33+ million PubMed articles was performed with SemNet 2.

Peritoneal GATA6+ macrophages function as a portal for Staphylococcus aureus dissemination.

Essentially all Staphylococcus aureus (S. aureus) bacteria that gain access to the circulation are plucked out of the bloodstream by the intravascular macrophages of the liver - the Kupffer cells. It is also thought that these bacteria are disseminated via the bloodstream to other organs.

Mutual reinforcement between telomere capping and canonical Wnt signalling in the intestinal stem cell niche.

Critical telomere shortening (for example, secondary to partial telomerase deficiency in the rare disease dyskeratosis congenita) causes tissue pathology, but underlying mechanisms are not fully understood. Mice lacking telomerase (for example, mTR telomerase RNA template mutants) provide a model for investigating pathogenesis. In such mice, after several generations of telomerase deficiency telomeres shorten to the point of uncapping, causing defects most pronounced in high-turnover tissues including intestinal epithelium.

Mechanistic studies of Ce(IV)-mediated oxidation of beta-dicarbonyls: solvent-dependent behavior of radical cation intermediates.

The Ce(IV)-initiated oxidation of synthetically relevant beta-diketones and beta-keto silyl enol ethers was explored in three solvents: acetonitrile, methylene chloride, and methanol. The studies presented herein show that the rate of reaction between Ce(IV) and the substrates is dependent upon the polarity of the solvent. Thermochemical studies and analysis are interpreted to be consistent with transition state stabilization by solvent being primarily responsible for the rate of substrate oxidation.