AIMC Topic: Sequence Analysis, DNA
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AI-driven feature selection and epigenetic pattern analysis: A screening strategy of CpGs validated by pyrosequencing for body fluid identification.
Forensic science international
Dec 6, 2024
Identification of body fluid stain at crime scene is one of the important tasks of forensic evidence analysis. Currently, body fluid-specific CpGs detected by DNA methylation microarray screening, have been widely studied for forensic body fluid iden...
Developing a method for predicting DNA nucleosomal sequences using deep learning.
Technology and health care : official journal of the European Society for Engineering and Medicine
Nov 20, 2024
BackgroundDeep learning excels at processing raw data because it automatically extracts and classifies high-level features. Despite biology's low popularity in data analysis, incorporating computer technology can improve biological research.Objective...
Visualization Methods for DNA Sequences: A Review and Prospects.
Biomolecules
Nov 14, 2024
The efficient analysis and interpretation of biological sequence data remain major challenges in bioinformatics. Graphical representation, as an emerging and effective visualization technique, offers a more intuitive method for analyzing DNA sequence...
Deep learning enables the use of ultra-high-density array in DNBSEQ.
Scientific reports
Nov 13, 2024
DNBSEQ employs a patterned array to facilitate massively parallel sequencing of DNA nanoballs (DNBs), leading to a considerable boost in throughput. By employing the ultra-high-density (UHD) array with an increased density of DNB binding sites, the t...
Effect of graphene electrode functionalization on machine learning-aided single nucleotide classification.
Nanoscale
Nov 7, 2024
Solid-state nanogap-based DNA sequencing with a quantum tunneling approach has emerged as a promising avenue due to its potential to deliver swift and precise sequencing outcomes. Nevertheless, despite significant progress, experimentally achieving s...
DeepDualEnhancer: A Dual-Feature Input DNABert Based Deep Learning Method for Enhancer Recognition.
International journal of molecular sciences
Nov 1, 2024
Enhancers are cis-regulatory DNA sequences that are widely distributed throughout the genome. They can precisely regulate the expression of target genes. Since the features of enhancer segments are difficult to detect, we propose DeepDualEnhancer, a ...
An Integrated Multi-Model Framework Utilizing Convolutional Neural Networks Coupled with Feature Extraction for Identification of 4mC Sites in DNA Sequences.
Computers in biology and medicine
Oct 28, 2024
N4-methylcytosine (4mC) is a chemical modification that occurs on one of the four nucleotide bases in DNA and plays a vital role in DNA expression, repair, and replication. It also actively participates in the regulation of cell differentiation and g...
Generative language models on nucleotide sequences of human genes.
Scientific reports
Sep 27, 2024
Language models, especially transformer-based ones, have achieved colossal success in natural language processing. To be precise, studies like BERT for natural language understanding and works like GPT-3 for natural language generation are very impor...
Bioinformatics challenges for profiling the microbiome in cancer: pitfalls and opportunities.
Trends in microbiology
Sep 12, 2024
Increasing evidence suggests that the human microbiome plays an important role in cancer risk and treatment. Untargeted 'omics' techniques have accelerated research into microbiome-cancer interactions, supporting the discovery of novel associations a...
Utilizing Deep Neural Networks to Fill Gaps in Small Genomes.
International journal of molecular sciences
Aug 4, 2024
With the widespread adoption of next-generation sequencing technologies, the speed and convenience of genome sequencing have significantly improved, and many biological genomes have been sequenced. However, during the assembly of small genomes, we st...
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