Aflatoxin B(1) (AFB(1) ) is a potent mutagen and an important risk factor for hepatocellular carcinoma (HCC) in humans. Transgenic mouse strains and cells in culture have been used to detect different types of mutations caused by AFB(1) and investigate the molecular determinants of their location and frequency. The AFB(1) mutational spectrum in the gpt gene was markedly different in AS52 cells compared with the liver in gpt delta B6C3F1 transgenic mice. The results demonstrate the importance of metabolism, chromosomal location, transcription and selection conditions on mutational spectra.
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http://dx.doi.org/10.1002/em.21711 | DOI Listing |
Genes (Basel)
December 2024
Genomic Medicine Laboratory UILDM, IRCCS Santa Lucia Foundation, 00179 Rome, Italy.
Background/objectives: Artificial intelligence and large language models like ChatGPT and Google's Gemini are promising tools with remarkable potential to assist healthcare professionals. This study explores ChatGPT and Gemini's potential utility in assisting clinicians during the first evaluation of patients with suspected neurogenetic disorders.
Methods: By analyzing the model's performance in identifying relevant clinical features, suggesting differential diagnoses, and providing insights into possible genetic testing, this research seeks to determine whether these AI tools could serve as a valuable adjunct in neurogenetic assessments.
bioRxiv
January 2025
Division of Biology and Biological Engineering, 1200 E. California Boulevard, California Institute of Technology, Pasadena, CA 91125, USA.
Biological knowledgebases are essential resources for biomedical researchers, providing ready access to gene function and genomic data. Professional, manual curation of knowledgebases, however, is labor-intensive and thus high-performing machine learning methods that improve biocuration efficiency are needed. Here we report on sentence-level classification to identify biocuration-relevant sentences in the full text of published references for two gene function data types: gene expression and protein kinase activity.
View Article and Find Full Text PDFPlants (Basel)
December 2024
Stage Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an 271018, China.
Under NaHCO stress, exogenous 24-epibrassinolide (EBR) markedly alleviated Na accumulation in cucumber plants, thereby decreasing the Na/K, Na/Mg, and Na/Ca ratios. This mitigation was accompanied by elevated concentrations of K, Ca, and Mg, as well as enhanced expression of the and genes. In addition, the activities of plasma membrane H-ATPase, vesicular membrane H-ATPase, and vesicular membrane H-PPase were significantly increased, contributing to the maintenance of ionic balance in cucumber plants.
View Article and Find Full Text PDFCell Genom
January 2025
Department of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105, USA. Electronic address:
Exploratory analysis of single-cell RNA sequencing (scRNA-seq) typically relies on hard clustering over two-dimensional projections like uniform manifold approximation and projection (UMAP). However, such methods can severely distort the data and have many arbitrary parameter choices. Methods that can model scRNA-seq data as non-discrete "gene expression programs" (GEPs) can better preserve the data's structure, but currently, they are often not scalable, not consistent across repeated runs, and lack an established method for choosing key parameters.
View Article and Find Full Text PDFDiagn Pathol
January 2025
Cell Culture Laboratory, School of Dentistry, Federal University of Para, Rua Augusto Correa, 01 Guama, Belem, PA, 66075110, Brazil.
Background: Considering the significant participation of the microenvironment in the local aggressiveness of odontogenic keratocysts, this study aims to evaluate the expression of ADAMTS-1 and its substrates, versican, aggrecan and brevican in this locally invasive odontogenic cyst.
Methods: Immunohistochemistry and polymerase chain reaction (PCR) were conducted on 30 cases of odontogenic keratocysts (OKCs) and 20 dental follicles (DFs).
Results: The immunohistochemical expression of these proteins was predominantly cytoplasmic and granular across all samples.
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