AIMC Topic: Computational Biology
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Deep homo-heterogeneous association mining with hybrid scholars and multidimensional mixed moment networks: Embedding-Driven prediction of microbe-drug interactions.
Computers in biology and medicine
Jul 11, 2025
Drug repurposing accelerates microbial therapy development by bypassing the costly and time-consuming traditional drug discovery process. However, existing computational methods for predicting drug-microbe associations (MDAs) struggle to capture comp...
Diagnostic immune-related markers for diabetic kidney disease: a bioinformatics and machine learning approach.
Renal failure
Jul 10, 2025
OBJECTIVE: Diabetic kidney disease (DKD) is a leading cause of chronic kidney disease, with chronic inflammation driving its progression. This study aimed to identify immune-related diagnostic biomarkers for DKD and explore their association with imm...
StackPIP: An Effective Computational Framework for Accurate and Balanced Identification of Proinflammatory Peptides.
Journal of chemical information and modeling
Jul 10, 2025
Proinflammatory peptides (PIPs) play a crucial role in immune response modulation by orchestrating cytokine release and leukocyte recruitment. Accurate identification of PIPs is essential for understanding inflammation-related diseases and developing...
Rprot-Vec: a deep learning approach for fast protein structure similarity calculation.
BMC bioinformatics
Jul 10, 2025
BACKGROUND: Predicting protein structural similarity and detecting homologous sequences remain fundamental and challenging tasks in computational biology. Accurate identification of structural homologs enables function inference for newly discovered ...
Interpretability-guided RNA N-methyladenosine modification site prediction with invertible neural networks.
Communications biology
Jul 8, 2025
As one of the most common and abundant post-transcriptional modifications, N-methyladenosine (mA) has been extensively studied for its essential regulatory role in gene expression and cell functions. The location of mA RNA modification sites, however...
Integrated analysis of WGCNA and machine learning identified diagnostic biomarkers in trauma-induced coagulopathy.
Scientific reports
Jul 8, 2025
Despite advancements in trauma care, uncontrolled hemorrhage and trauma-induced coagulopathy (TIC) remain the leading causes of preventable deaths after trauma. Understanding the genetic underpinnings and molecular mechanisms of TIC is crucial for de...
Advancing the accuracy of clathrin protein prediction through multi-source protein language models.
Scientific reports
Jul 8, 2025
Clathrin is a key cytoplasmic protein that serves as the predominant structural element in the formation of coated vesicles. Specifically, clarithin enables the scission of newly formed vesicles from the plasma membrane's cytoplasmic face. Efficient ...
Identification and validation of parthanatos-related genes in end-stage renal disease.
Renal failure
Jul 6, 2025
BACKGROUND: End-Stage Renal Disease (ESRD) is a severe chronic kidney disease with a rising global incidence, often accompanied by various complications, severely impacting patients' quality of life. Parthanatos plays a crucial role in the pathogenes...
Diff-SE: A Diffusion-Augmented Contrastive Learning Framework for Super-Enhancer Prediction.
Journal of chemical information and modeling
Jul 4, 2025
Super-enhancers (SEs) are cis-regulatory elements that play crucial roles in gene expression and are implicated in diseases such as cancer and Alzheimer's. Traditional identification methods rely on ChIP-seq experiments, which are costly and time-con...
Computational Strategies to Enhance Vitamin B Biosynthesis Potential of Microbes.
Current microbiology
Jul 4, 2025
Vitamin B is a vital nutrient for the normal functioning of many metabolic processes. It has a characteristic corrinoid ring structure with a cobalt ion. Its complex chemical structure demands 30 enzyme-catalyzed steps for synthesis. Deficiency of th...
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