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DNA-Binding Proteins

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SAResNet: self-attention residual network for predicting DNA-protein binding.

Briefings in bioinformatics Sep 2, 2021
Knowledge of the specificity of DNA-protein binding is crucial for understanding the mechanisms of gene expression, regulation and gene therapy. In recent years, deep-learning-based methods for predicting DNA-protein binding from sequence data have a...
Algorithms Reproducibility of Results Deep Learning Humans Neural Networks, Computer Internet DNA-Binding Proteins Binding Sites Protein Binding Computational Biology DNA
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Bound2Learn: a machine learning approach for classification of DNA-bound proteins from single-molecule tracking experiments.

Nucleic acids research Aug 20, 2021
DNA-bound proteins are essential elements for the maintenance, regulation, and use of the genome. The time they spend bound to DNA provides useful information on their stability within protein complexes and insight into the understanding of biologica...
Time-Lapse Imaging Escherichia coli DNA Kinetics DNA-Binding Proteins Computer Simulation Machine Learning Saccharomyces cerevisiae Protein Binding Algorithms Single Molecule Imaging Computational Biology
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DBP-GAPred: An intelligent method for prediction of DNA-binding proteins types by enhanced evolutionary profile features with ensemble learning.

Journal of bioinformatics and computational biology Aug 1, 2021
DNA-binding proteins (DBPs) perform an influential role in diverse biological activities like DNA replication, slicing, repair, and transcription. Some DBPs are indispensable for understanding many types of human cancers (i.e. lung, breast, and liver...
Humans Algorithms DNA-Binding Proteins Amino Acid Sequence Position-Specific Scoring Matrices Computational Biology Support Vector Machine Databases, Protein
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Deep learning approaches for sleep disorder prediction in an asthma cohort.

The Journal of asthma : official journal of the Association for the Care of Asthma Jul 1, 2021
OBJECTIVE: Sleep is a natural activity of humans that affects physical and mental health; therefore, sleep disturbance may lead to fatigue and lower productivity. This study examined 1 million samples included in the Taiwan National Health Insurance ...
Predictive Value of Tests DNA-Binding Proteins Sleep Wake Disorders Child, Preschool Child Nerve Tissue Proteins Asthma Male Middle Aged Infant Female Humans Deep Learning Young Adult Artificial Intelligence Adolescent Adult
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A sequence-based multiple kernel model for identifying DNA-binding proteins.

BMC bioinformatics May 31, 2021
BACKGROUND: DNA-Binding Proteins (DBP) plays a pivotal role in biological system. A mounting number of researchers are studying the mechanism and detection methods. To detect DBP, the tradition experimental method is time-consuming and resource-consu...
DNA-Binding Proteins Machine Learning Support Vector Machine
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DeepD2V: A Novel Deep Learning-Based Framework for Predicting Transcription Factor Binding Sites from Combined DNA Sequence.

International journal of molecular sciences May 24, 2021
Predicting in vivo protein-DNA binding sites is a challenging but pressing task in a variety of fields like drug design and development. Most promoters contain a number of transcription factor (TF) binding sites, but only a small minority has been id...
K562 Cells Humans Binding Sites Computational Biology Software DNA Transcription Factors Deep Learning DNA-Binding Proteins Cell Line Promoter Regions, Genetic
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DeepDISE: DNA Binding Site Prediction Using a Deep Learning Method.

International journal of molecular sciences May 24, 2021
It is essential for future research to develop a new, reliable prediction method of DNA binding sites because DNA binding sites on DNA-binding proteins provide critical clues about protein function and drug discovery. However, the current prediction ...
Binding Sites Software DNA-Binding Proteins Animals Humans Deep Learning Protein Conformation Computational Biology Proteome DNA
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GraphBind: protein structural context embedded rules learned by hierarchical graph neural networks for recognizing nucleic-acid-binding residues.

Nucleic acids research May 21, 2021
Knowledge of the interactions between proteins and nucleic acids is the basis of understanding various biological activities and designing new drugs. How to accurately identify the nucleic-acid-binding residues remains a challenging task. In this pap...
Binding Sites DNA-Binding Proteins RNA Protein Conformation Neural Networks, Computer Software Protein Binding RNA-Binding Proteins DNA
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Few-shot learning creates predictive models of drug response that translate from high-throughput screens to individual patients.

Nature cancer Feb 1, 2021
Cell-line screens create expansive datasets for learning predictive markers of drug response, but these models do not readily translate to the clinic with its diverse contexts and limited data. In the present study, we apply a recently developed tech...
DNA-Binding Proteins Humans Neural Networks, Computer Ubiquitin-Protein Ligases Machine Learning
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TargetDBP+: Enhancing the Performance of Identifying DNA-Binding Proteins via Weighted Convolutional Features.

Journal of chemical information and modeling Jan 25, 2021
Protein-DNA interactions exist ubiquitously and play important roles in the life cycles of living cells. The accurate identification of DNA-binding proteins (DBPs) is one of the key steps to understand the mechanisms of protein-DNA interactions. Alth...
DNA-Binding Proteins Binding Sites Algorithms Position-Specific Scoring Matrices Support Vector Machine Databases, Protein
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