AIMC Topic: DNA

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EpiTEAmDNA: Sequence feature representation via transfer learning and ensemble learning for identifying multiple DNA epigenetic modification types across species.

Computers in biology and medicine May 11, 2023
Methylation is a major DNA epigenetic modification for regulating the biological processes without altering the DNA sequence, and multiple types of DNA methylations have been discovered, including 6mA, 5hmC, and 4mC. Multiple computational approaches...
Neural Networks, Computer DNA Methylation DNA Epigenesis, Genetic Machine Learning
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Reconfigurable self-assembled DNA devices.

Science robotics Apr 26, 2023
Modular reconfigurable systems can be achieved with DNA origami, demonstrating the potential to generate molecular robots.
DNA Robotics
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Modular reconfiguration of DNA origami assemblies using tile displacement.

Science robotics Apr 26, 2023
The power of natural evolution lies in the adaptability of biological organisms but is constrained by the time scale of genetics and reproduction. Engineeringartificial molecular machines should not only include adaptability as a core feature but als...
Temperature Robotics DNA Nanostructures Nucleic Acid Conformation
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Modulation of DNA-protein Interactions by Proximal Genetic Elements as Uncovered by Interpretable Deep Learning.

Journal of molecular biology Apr 24, 2023
Transcription factors (TF) recognize specific motifs in the genome that are typically 6-12 bp long to regulate various aspects of the cellular machinery. Presence of binding motifs and favorable genome accessibility are key drivers for a consistent T...
DNA Binding Sites Transcription Factors Protein Binding Deep Learning
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Identification of DNA-binding proteins by Kernel Sparse Representation via L-matrix norm.

Computers in biology and medicine Apr 11, 2023
An understanding of DNA-binding proteins is helpful in exploring the role that proteins play in cell biology. Furthermore, the prediction of DNA-binding proteins is essential for the chemical modification and structural composition of DNA, and is of ...
Algorithms Amino Acid Sequence Machine Learning DNA-Binding Proteins DNA Support Vector Machine
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MV-H-RKM: A Multiple View-Based Hypergraph Regularized Restricted Kernel Machine for Predicting DNA-Binding Proteins.

IEEE/ACM transactions on computational biology and bioinformatics Apr 3, 2023
DNA-binding proteins (DBPs) have a significant impact on many life activities, so identification of DBPs is a crucial issue. And it is greatly helpful to understand the mechanism of protein-DNA interactions. In traditional experimental methods, it is...
Algorithms Machine Learning Support Vector Machine DNA-Binding Proteins DNA
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How Deepbics Quantifies Intensities of Transcription Factor-DNA Binding and Facilitates Prediction of Single Nucleotide Variant Pathogenicity With a Deep Learning Model Trained On ChIP-Seq Data Sets.

IEEE/ACM transactions on computational biology and bioinformatics Apr 3, 2023
The binding of DNA sequences to cell type-specific transcription factors is essential for regulating gene expression in all organisms. Many variants occurring in these binding regions play crucial roles in human disease by disrupting the cis-regulati...
Chromatin Immunoprecipitation Sequencing Nucleotides Binding Sites Virulence Deep Learning DNA Transcription Factors Humans
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Predicting gene and protein expression levels from DNA and protein sequences with Perceiver.

Computer methods and programs in biomedicine Mar 22, 2023
BACKGROUND AND OBJECTIVE: The functions of an organism and its biological processes result from the expression of genes and proteins. Therefore quantifying and predicting mRNA and protein levels is a crucial aspect of scientific research. Concerning ...
Mice DNA Algorithms Proteins Neural Networks, Computer RNA, Messenger Animals
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Unlocking the microbial studies through computational approaches: how far have we reached?

Environmental science and pollution research international Mar 15, 2023
The metagenomics approach accelerated the study of genetic information from uncultured microbes and complex microbial communities. In silico research also facilitated an understanding of protein-DNA interactions, protein-protein interactions, docking...
Artificial Intelligence Proteomics Metagenomics Microbiota DNA
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Prediction and Control in DNA Nanotechnology.

ACS applied bio materials Mar 7, 2023
DNA nanotechnology is a rapidly developing field that uses DNA as a building material for nanoscale structures. Key to the field's development has been the ability to accurately describe the behavior of DNA nanostructures using simulations and other ...
Nanotechnology DNA Nanostructures Artificial Intelligence Computer Simulation
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