AIMC Topic: Computational Biology
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Fuzzy-Based Identification of Transition Cells to Infer Cell Trajectory for Single-Cell Transcriptomics.
Journal of computational biology : a journal of computational molecular cell biology
Dec 13, 2024
With the continuous evolution of single-cell RNA sequencing technology, it has become feasible to reconstruct cell development processes using computational methods. Trajectory inference is a crucial downstream analytical task that provides valuable ...
Adapting to time: Why nature may have evolved a diverse set of neurons.
PLoS computational biology
Dec 13, 2024
Brains have evolved diverse neurons with varying morphologies and dynamics that impact temporal information processing. In contrast, most neural network models use homogeneous units that vary only in spatial parameters (weights and biases). To explor...
Neural networks with optimized single-neuron adaptation uncover biologically plausible regularization.
PLoS computational biology
Dec 13, 2024
Neurons in the brain have rich and adaptive input-output properties. Features such as heterogeneous f-I curves and spike frequency adaptation are known to place single neurons in optimal coding regimes when facing changing stimuli. Yet, it is still u...
Advanced vision transformers and open-set learning for robust mosquito classification: A novel approach to entomological studies.
PLoS computational biology
Dec 13, 2024
Mosquito-related diseases pose a significant threat to global public health, necessitating efficient and accurate mosquito classification for effective surveillance and control. This work presents an innovative approach to mosquito classification by ...
Identification and verification of the optimal feature genes of ferroptosis in thyroid-associated orbitopathy.
Frontiers in immunology
Dec 13, 2024
BACKGROUND: Thyroid-associated orbitopathy (TAO) is an autoimmune inflammatory disorder of the orbital adipose tissue, primarily causing oxidative stress injury and tissue remodeling in the orbital connective tissue. Ferroptosis is a form of programm...
S-PLM: Structure-Aware Protein Language Model via Contrastive Learning Between Sequence and Structure.
Advanced science (Weinheim, Baden-Wurttemberg, Germany)
Dec 12, 2024
Proteins play an essential role in various biological and engineering processes. Large protein language models (PLMs) present excellent potential to reshape protein research by accelerating the determination of protein functions and the design of pro...
Novel machine learning model for predicting cancer drugs' susceptibilities and discovering novel treatments.
Journal of biomedical informatics
Dec 12, 2024
BACKGROUND AND OBJECTIVE: Timely treatment is crucial for cancer patients, so it's important to administer the appropriate treatment as soon as possible. Because individuals can respond differently to a given drug due to their unique genomic profiles...
The significance of long chain non-coding RNA signature genes in the diagnosis and management of sepsis patients, and the development of a prediction model.
Frontiers in immunology
Dec 12, 2024
BACKGROUND: Sepsis is a life-threatening organ dysfunction condition produced by dysregulation of the host response to infection. It is now characterized by a high clinical morbidity and mortality rate, endangering patients' lives and health. The pur...
Integration of biological data via NMF for identification of human disease-associated gene modules through multi-label classification.
PloS one
Dec 12, 2024
Proteins associated with multiple diseases often interact, forming disease modules that are critical for understanding disease mechanisms. This study integrates protein-protein interactions (PPIs) and Gene Ontology data using non-negative matrix fact...
DeepPD: A Deep Learning Method for Predicting Peptide Detectability Based on Multi-feature Representation and Information Bottleneck.
Interdisciplinary sciences, computational life sciences
Dec 11, 2024
Peptide detectability measures the relationship between the protein composition and abundance in the sample and the peptides identified during the analytical procedure. This relationship has significant implications for the fundamental tasks of prote...
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