AIMC Topic: Computational Biology

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Fusion_f5C-Pred: a dual-branch feature fusion framework for 5-formylcytosine modification sites prediction.

BMC genomics
BACKGROUND: 5-formylcytidine (f5C) is a unique post-transcriptional RNA modification present at the wobble position of mRNAs and tRNAs, that plays a critical role in mitochondrial protein synthesis and is potentially involved in translation regulatio...

Candidate correlates of protection in the HVTN505 HIV-1 vaccine efficacy trial identified by positive-unlabeled learning.

PLoS computational biology
With a goal of unveiling mechanisms by which vaccines can provide protection against HIV-1 acquisition, several studies have explored correlates of risk of HIV-1 acquisition in HVTN 505, which was a phase IIb trial conducted to assess the safety and ...

A machine learning model and molecular clusters of epigenetic chromatin regulators in tuberculosis based on bioinformatics and clinical samples.

Scientific reports
The role of chromatin regulators (CRs) in mediating epigenetic changes during tuberculosis (TB) infection remains poorly understood. This study aimed to determine the efficacy of CRs in diagnosing TB and characterizing its heterogeneity. GSE83456 dat...

Accurate prediction of protein-ATP binding sites based on a protein pretrained large language model and a fractional-order convolutional neural network.

Scientific reports
ATP, a high-energy phosphate compound also known as adenosine triphosphate, serves as a direct energy source for living organisms. Proteins, composed of amino acids, are fundamental macromolecules and essential building blocks of life. The interactio...

TGM1 as a novel signature gene in psoriasis identified by integrative bioinformatics and experimental validation.

Molecular medicine reports
Psoriasis is a systemic immune‑mediated skin disease, typically considered to be incurable. Identification of meaningful biomarkers has been a notable challenge in psoriasis prevention and management. The present study aimed to determine the signatur...

Identification and validation of biomarkers associated with cellular senescence and demethylation in acute myocardial infarction.

Scientific reports
Acute myocardial infarction (AMI) triggered cardiomyocyte senescence and impaired cardiac function. Methylation modifications and related enzymes in patients were also significantly altered, but the association between cellular senescence and demethy...

MarkerPredict: predicting clinically relevant predictive biomarkers with machine learning.

NPJ systems biology and applications
Precision oncology relies on predictive biomarkers for selecting targeted cancer therapies. Network-based properties of proteins, together with structural features such as intrinsic disorder, are likely to shape their potential as biomarkers. We ther...

Utilising bioinformatics and molecular docking technology to explore the underlying mechanisms of intervertebral disc degeneration with potential therapeutic drugs and formulas.

Journal of global health
BACKGROUND: Intervertebral disc degeneration (IDD) is prevalent in orthopaedics, yet lacks effective treatments. This study seeks to discover potential therapeutic targets for IDD to inform clinical therapies and traditional medicine approaches.

Structure-enhanced graph meta learning for few-shot gene regulatory network inference.

Genome biology
Inferring gene regulatory networks (GRNs) is essential for understanding biological regulation. Although numerous deep learning approaches have been developed for GRN inference, most require large amounts of labeled data. We present Meta-TGLink, a st...