AIMC Topic: Computational Biology

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Improved Fuzzy Cognitive Maps for Gene Regulatory Networks Inference Based on Time Series Data.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
Microarray data provide lots of information regarding gene expression levels. Due to the large amount of such data, their analysis requires sufficient computational methods for identifying and analyzing gene regulation networks; however, researchers ...
Gene Expression Profiling Humans Fuzzy Logic Algorithms Gene Regulatory Networks Computational Biology
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Graph Convolutional Network With Self-Supervised Learning for Brain Disease Classification.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
Brain functional network (BFN) analysis has become a popular method for identifying neurological diseases at their early stages and revealing sensitive biomarkers related to these diseases. Due to the fact that BFN is a graph with complex structure, ...
Humans Brain Diseases Cognitive Dysfunction Autism Spectrum Disorder Algorithms Computational Biology Neural Networks, Computer Brain Supervised Machine Learning Databases, Factual
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Ense-i6mA: Identification of DNA N-Methyladenine Sites Using XGB-RFE Feature Selection and Ensemble Machine Learning.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
DNA N-methyladenine (6mA) is an important epigenetic modification that plays a vital role in various cellular processes. Accurate identification of the 6mA sites is fundamental to elucidate the biological functions and mechanisms of modification. How...
Arabidopsis DNA Drosophila melanogaster Adenine Sequence Analysis, DNA DNA Methylation Algorithms Animals Computational Biology Machine Learning
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Intra-Inter Graph Representation Learning for Protein-Protein Binding Sites Prediction.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
Graph neural networks have drawn increasing attention and achieved remarkable progress recently due to their potential applications for a large amount of irregular data. It is a natural way to represent protein as a graph. In this work, we focus on p...
Algorithms Databases, Protein Ligands Machine Learning Protein Binding Neural Networks, Computer Computational Biology Binding Sites Proteins
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SAGCN: Using Graph Convolutional Network With Subgraph-Aware for circRNA-Drug Sensitivity Identification.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
Circular RNAs (circRNAs) play a significant role in cancer development and therapy resistance. There is substantial evidence indicating that the expression of circRNAs affects the sensitivity of cells to drugs. Identifying circRNAs-drug sensitivity a...
RNA, Circular Antineoplastic Agents Neoplasms Humans Computational Biology Neural Networks, Computer Algorithms
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Distantly Supervised Biomedical Relation Extraction via Negative Learning and Noisy Student Self-Training.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
Biomedical relation extraction aims to identify underlying relationships among entities, such as gene associations and drug interactions, within biomedical texts. Despite advancements in relation extraction in general knowledge domains, the scarcity ...
Supervised Machine Learning Data Mining Algorithms Databases, Factual Computational Biology Humans
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Prediction of Inter-Residue Multiple Distances and Exploration of Protein Multiple Conformations by Deep Learning.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
AlphaFold2 has achieved a major breakthrough in end-to-end prediction for static protein structures. However, protein conformational change is considered to be a key factor in protein biological function. Inter-residue multiple distances prediction i...
Models, Molecular Protein Conformation Proteins Databases, Protein Deep Learning Computational Biology Algorithms
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Transcription Factor Binding Site Prediction Using CnNet Approach.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
Controlling the gene expression is the most important development in a living organism, which makes it easier to find different kinds of diseases and their causes. It's very difficult to know what factors control the gene expression. Transcription Fa...
Humans Deep Learning Computational Biology Transcription Factors Neural Networks, Computer Algorithms Sequence Analysis, DNA Binding Sites
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RGCNPPIS: A Residual Graph Convolutional Network for Protein-Protein Interaction Site Prediction.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
Accurate identification of protein-protein interaction (PPI) sites is crucial for understanding the mechanisms of biological processes, developing PPI networks, and detecting protein functions. Currently, most computational methods primarily concentr...
Protein Interaction Mapping Protein Interaction Maps Computational Biology Databases, Protein Binding Sites Proteins Humans Neural Networks, Computer Algorithms
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A Multi-Task Deep Feature Selection Method for Brain Imaging Genetics.

IEEE/ACM transactions on computational biology and bioinformatics Dec 10, 2024
Using brain imaging quantitative traits (QTs) for identifying genetic risk factors is an important research topic in brain imaging genetics. Many efforts have been made for this task via building linear models between imaging QTs and genetic factors ...
Neural Networks, Computer Algorithms Brain Humans Image Processing, Computer-Assisted Computational Biology Deep Learning Polymorphism, Single Nucleotide Linear Models Neuroimaging
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