AIMC Topic: Computational Biology

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Graph attention networks-based prediction of MicroRNA-disease causality in head and neck neoplasms.

Scientific reports
Head and neck cancers represent a critical global health issue, contributing to substantial morbidity and mortality. Recent research has explored the role of microRNAs (miRNAs) in these cancers by constructing miRNA-associated disease networks using ...

Machine learning-based screening and validation of pyroptosis-associated prognostic genes and potential drugs in cervical cancer.

BMC medical genomics
Pyroptosis is a newly discovered form of programmed cell death, but its mechanism in the development of cervical cancer has not been elucidated. Cervical cancer differentially expressed pyroptosis-related genes were identified via bioinformatic analy...

Revealing new associations between lncRNAs and diseases through cross attention mechanism and multiple level feature fusion.

Scientific reports
Revealing new lncRNA-disease associations (LDAs) is necessary to decipher pathological mechanisms and find new clues of diagnosis and therapy for complex diseases. However, experimental methods for LDA identification need a significant amount of time...

Identifying SUMOylation-related genes in liver fibrosis with bioinformatics and experimental models for diagnostic insights.

Scientific reports
Liver fibrosis (LF) is a medical disorder caused by prolonged chronic liver injury, which, if left untreated, can progress to cirrhosis or liver cancer, posing significant risks to patient health. In recent years, the increase in liver diseases, incl...

OneProt: Towards multi-modal protein foundation models via latent space alignment of sequence, structure, binding sites and text encoders.

PLoS computational biology
Recent advances in Artificial Intelligence have enabled multi-modal systems to model and translate diverse information spaces. Extending beyond text and vision, we introduce OneProt, a multi-modal Deep Learning model for proteins that integrates stru...

Charting the virosphere: computational synergies of AI and bioinformatics in viral discovery and evolution.

Journal of virology
The advancement of metagenomic sequencing has revealed a vast viral diversity while simultaneously exposing limitations of homology-based tools such as BLAST and HMMER, which often fail to detect highly divergent viral genomes. The integration of art...

Novel heterozygous mutation in KMT2B causing an unusual phenotypic presentation: a comprehensive clinical and bioinformatic analysis.

Molecular biology reports
BACKGROUND: KMT2B-related dystonia is a childhood-onset movement disorder. This study investigated a novel KMT2B gene variant using whole exome sequencing (WES) and bioinformatics analysis, and expanded the known clinical spectrum of KMT2B-related dy...

SpaMWGDA: Identifying spatial domains of spatial transcriptomes using multi-view weighted fusion graph convolutional network and data augmentation.

PLoS computational biology
The rapid development of spatial transcriptomics (ST) has made it possible to effectively integrate gene expression and spatial information of cells and accurately identify spatial domains. A large number of deep learning (DL)-based methods have been...

OmniCLIC: A Unified Omics Contrastive Learning Framework for Effective Integration and Classification of Multiomics Data.

Journal of chemical information and modeling
Integrating multiomics data for cancer subtype classification remains a critical yet challenging task due to the high dimensionality, heterogeneity, and limited interpretability of omics features. To address these limitations, we propose OmniCLIC, a ...

Synergistic approach utilizing bioinformatics, machine learning, and traditional screening for the identification of novel CSK inhibitors targeting hepatocellular carcinoma.

Journal of computer-aided molecular design
The overexpression or activation of C-terminal Src kinase (CSK) has been recognized as a pivotal factor in the progression of hepatocellular carcinoma (HCC), positioning CSK as a promising therapeutic target. Despite this potential, no CSK-specific i...