AI Medical Compendium Journal:
BMC bioinformatics

Showing 21 to 30 of 772 articles

Mammalian piRNA target prediction using a hierarchical attention model.

BMC bioinformatics
BACKGROUND: Piwi-interacting RNAs (piRNAs) are well established for monitoring and protecting the genome from transposons in germline cells. Recently, numerous studies provided evidence that piRNAs also play important roles in regulating mRNA transcr...

A hybrid machine learning framework for functional annotation of mitochondrial glutathione transport and metabolism proteins in cancers.

BMC bioinformatics
BACKGROUND: Alterations of metabolism, including changes in mitochondrial metabolism as well as glutathione (GSH) metabolism are a well appreciated hallmark of many cancers. Mitochondrial GSH (mGSH) transport is a poorly characterized aspect of GSH m...

SEGT-GO: a graph transformer method based on PPI serialization and explanatory artificial intelligence for protein function prediction.

BMC bioinformatics
BACKGROUND: A massive amount of protein sequences have been obtained, but their functions remain challenging to discern. In recent research on protein function prediction, Protein-Protein Interaction (PPI) Networks have played a crucial role. Uncover...

Conditional similarity triplets enable covariate-informed representations of single-cell data.

BMC bioinformatics
BACKGROUND: Single-cell technologies enable comprehensive profiling of diverse immune cell-types through the measurement of multiple genes or proteins per individual cell. In order to translate immune signatures assayed from blood or tissue into powe...

Biomedical named entity recognition using improved green anaconda-assisted Bi-GRU-based hierarchical ResNet model.

BMC bioinformatics
BACKGROUND: Biomedical text mining is a technique that extracts essential information from scientific articles using named entity recognition (NER). Traditional NER methods rely on dictionaries, rules, or curated corpora, which may not always be acce...

scSMD: a deep learning method for accurate clustering of single cells based on auto-encoder.

BMC bioinformatics
BACKGROUND: Single-cell RNA sequencing (scRNA-seq) has transformed biological research by offering new insights into cellular heterogeneity, developmental processes, and disease mechanisms. As scRNA-seq technology advances, its role in modern biology...

Marigold: a machine learning-based web app for zebrafish pose tracking.

BMC bioinformatics
BACKGROUND: High-throughput behavioral analysis is important for drug discovery, toxicological studies, and the modeling of neurological disorders such as autism and epilepsy. Zebrafish embryos and larvae are ideal for such applications because they ...

Hybrid generative adversarial network based on frequency and spatial domain for histopathological image synthesis.

BMC bioinformatics
BACKGROUND: Due to the complexity and cost of preparing histopathological slides, deep learning-based methods have been developed to generate high-quality histological images. However, existing approaches primarily focus on spatial domain information...

HDN-DDI: a novel framework for predicting drug-drug interactions using hierarchical molecular graphs and enhanced dual-view representation learning.

BMC bioinformatics
BACKGROUND: Drug-drug interactions (DDIs) especially antagonistic ones present significant risks to patient safety, underscoring the urgent need for reliable prediction methods. Recently, substructure-based DDI prediction has garnered much attention ...

Joint embedding-classifier learning for interpretable collaborative filtering.

BMC bioinformatics
BACKGROUND: Interpretability is a topical question in recommender systems, especially in healthcare applications. An interpretable classifier quantifies the importance of each input feature for the predicted item-user association in a non-ambiguous f...