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Computational Biology

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An NLP-based method to mine gene and function relationships from published articles.

Scientific reports
Understanding the intricacies of genes function within biological systems is paramount for scientific advancement and medical progress. Owing to the evolving landscape of this research and the complexity of biological processes, however, this task pr...

Unveiling the ageing-related genes in diagnosing osteoarthritis with metabolic syndrome by integrated bioinformatics analysis and machine learning.

Artificial cells, nanomedicine, and biotechnology
Ageing significantly contributes to osteoarthritis (OA) and metabolic syndrome (MetS) pathogenesis, yet the underlying mechanisms remain unknown. This study aimed to identify ageing-related biomarkers in OA patients with MetS. OA and MetS datasets an...

Integrating Artificial Intelligence and Bioinformatics Methods to Identify Disruptive STAT1 Variants Impacting Protein Stability and Function.

Genes
The Signal Transducer and Activator of Transcription 1 () gene is an essential component of the JAK-STAT signaling pathway. This pathway plays a pivotal role in the regulation of different cellular processes, including immune responses, cell growth,...

Identification of potential biomarkers in cardiovascular calcification based on bioinformatics combined with single-cell RNA-seq and multiple machine learning analysis.

Cellular signalling
BACKGROUND: The molecular and genetic mechanisms underlying vascular calcification remain unclear. This study aimed to determine the differences in calcification marker-related gene expression in macrophages.

ieGENES: A machine learning method for selecting differentially expressed genes in cancer studies.

Journal of biomedical informatics
Gene selection is crucial for cancer classification using microarray data. In the interests of improving cancer classification accuracy, in this paper, we developed a new wrapper method called ieGENES for gene selection. First we proposed a parsimoni...

TransRM: Weakly supervised learning of translation-enhancing N6-methyladenosine (mA) in circular RNAs.

International journal of biological macromolecules
As our understanding of Circular RNAs (circRNAs) continues to expand, accumulating evidence has demonstrated that circRNAs can interact with microRNAs and RNA-binding proteins to modulate gene expression. More importantly, a subset of circRNAs has be...

Identify the potential target of efferocytosis in knee osteoarthritis synovial tissue: a bioinformatics and machine learning-based study.

Frontiers in immunology
INTRODUCTION: Knee osteoarthritis (KOA) is a degenerative joint disease characterized by the progressive deterioration of cartilage and synovial inflammation. A critical mechanism in the pathogenesis of KOA is impaired efferocytosis in synovial tissu...

Identification of potential biomarkers for lung cancer using integrated bioinformatics and machine learning approaches.

PloS one
Lung cancer is one of the most common cancer and the leading cause of cancer-related death worldwide. Early detection of lung cancer can help reduce the death rate; therefore, the identification of potential biomarkers is crucial. Thus, this study ai...

Leveraging diverse cell-death patterns in diagnosis of sepsis by integrating bioinformatics and machine learning.

PeerJ
BACKGROUND: Sepsis is a life-threatening disease causing millions of deaths every year. It has been reported that programmed cell death (PCD) plays a critical role in the development and progression of sepsis, which has the potential to be a diagnosi...

Tisslet tissues-based learning estimation for transcriptomics.

BMC bioinformatics
In the context of multi-omics data analytics for various diseases, transcriptome-wide association studies leveraging genetically predicted gene expression hold promise for identifying novel regions linked to complex traits. However, existing methods ...