Gene expression is the basis for cells to achieve various functions, while DNA methylation constitutes a critical epigenetic mechanism governing gene expression regulation. Here we propose DeepMethyGene, an adaptive recursive convolutional neural net...
Subtractive genomics is an adaptable bioinformatics technique that is used to identify potential therapeutic targets by differentiating essential genes in pathogens and non-pathogenic genes. Since, identification of therapeutic targets and understand...
Proceedings of the National Academy of Sciences of the United States of America
Apr 7, 2025
The study of bacterial metabolism holds immense significance for improving human health and advancing agricultural practices. The prospective applications of genomically encoded bacterial metabolism present a compelling opportunity, particularly in t...
BACKGROUND: Clustering scRNA-seq data plays a vital role in scRNA-seq data analysis and downstream analyses. Many computational methods have been proposed and achieved remarkable results. However, there are several limitations of these methods. First...
Cell communication and signaling : CCS
Apr 5, 2025
BACKGROUND: Lysyl oxidases (LOX/LOXL1-4) are crucial for cancer progression, yet their transcriptional regulation, potential therapeutic targeting, prognostic value and involvement in immune regulation remain poorly understood. This study comprehensi...
BACKGROUND: Chromosomes of species exhibit a variety of high-dimensional organizational features, and chromatin loops, which are fundamental structures in the three-dimensional (3D) structure of the genome. Chromatin loops are visible speckled patter...
Identifying DNA-binding proteins and their binding residues is critical for understanding diverse biological processes, but conventional experimental approaches are slow and costly. Existing machine learning methods, while faster, often lack accuracy...
With the development of high-throughput sequencing technologies, predicting grain protein function from amino acid sequences based on intelligent model has become one of the significant tasks in bioinformatics. The soybean, maize, indica, and japonic...
Proteins often perform biological functions by forming complexes, thereby accurately predicting the structure of protein complexes is crucial to understanding and mastering their functions, as well as facilitating drug discovery. Protein monomeric st...
Ossification of the posterior longitudinal ligament is a degenerative disease that severely impacts the spine, with a complex pathogenesis involving the interplay of multiple genes. This study utilizes a combination of graph neural networks and deep ...
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