Nucleic acids research
Jul 22, 2024
Accurate RNA structure models are crucial for designing small molecule ligands that modulate their functions. This study assesses six standalone RNA 3D structure prediction methods-DeepFoldRNA, RhoFold, BRiQ, FARFAR2, SimRNA and Vfold2, excluding web...
Nucleic acids research
Jul 5, 2024
Protein-protein interactions (PPIs) play a vital role in cellular functions and are essential for therapeutic development and understanding diseases. However, current predictive tools often struggle to balance efficiency and precision in predicting t...
Nucleic acids research
Jul 5, 2024
The PSIRED Workbench is a long established and popular bioinformatics web service offering a wide range of machine learning based analyses for characterizing protein structure and function. In this paper we provide an update of the recent additions a...
Nucleic acids research
Jul 5, 2024
Intrinsically disordered proteins and protein regions (IDPs/IDRs) carry out important biological functions without relying on a single well-defined conformation. As these proteins are a challenge to study experimentally, computational methods play im...
Nucleic acids research
Jul 5, 2024
DNA, beyond its canonical B-form double helix, adopts various alternative conformations, among which the i-motif, emerging in cytosine-rich sequences under acidic conditions, holds significant biological implications in transcription modulation and t...
Nucleic acids research
Jul 5, 2024
Interaction with chemicals, present in drugs, food, environments, and consumer goods, is an integral part of our everyday life. However, depending on the amount and duration, such interactions can also result in adverse effects. With the increase in ...
Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
Jul 1, 2024
Chest X-ray imaging is widely used in medical examinations, with 2 billion performed globally annually. Interpreting X-ray images is time-consuming, prompting the development of AI-assisted systems. Generating a large set of high-quality labeled imag...
Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
Jul 1, 2024
Swallowing is a pivotal physiological function for human sustenance and hydration. Dysfunctions, termed dysphagia, necessitate prompt and precise diagnosis. Videofluoroscopic swallowing studies (VFSS) remain the gold standard for swallowing assessmen...
Bioinformatics (Oxford, England)
Jul 1, 2024
MOTIVATION: Identifying the binding sites of antibodies is essential for developing vaccines and synthetic antibodies. In this article, we investigate the optimal representation for predicting the binding sites in the two molecules and emphasize the ...
Bioinformatics (Oxford, England)
Jul 1, 2024
MOTIVATION: Gene set enrichment (GSE) analysis allows for an interpretation of gene expression through pre-defined gene set databases and is a critical step in understanding different phenotypes. With the rapid development of single-cell RNA sequenci...