AIMC Topic: High-Throughput Nucleotide Sequencing

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Machine Learning-Assisted Direct RNA Sequencing with Epigenetic RNA Modification Detection via Quantum Tunneling.

Analytical chemistry Jun 14, 2024
RNA sequence information holds immense potential as a drug target for diagnosing various RNA-mediated diseases and viral/bacterial infections. Massively parallel complementary DNA (c-DNA) sequencing helps but results in a loss of valuable information...
Epigenesis, Genetic Quantum Theory RNA Humans Machine Learning Sequence Analysis, RNA High-Throughput Nucleotide Sequencing
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NmTHC: a hybrid error correction method based on a generative neural machine translation model with transfer learning.

BMC genomics Jun 7, 2024
BACKGROUNDS: The single-pass long reads generated by third-generation sequencing technology exhibit a higher error rate. However, the circular consensus sequencing (CCS) produces shorter reads. Thus, it is effective to manage the error rate of long r...
Machine Learning Algorithms High-Throughput Nucleotide Sequencing Humans Neural Networks, Computer
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Deciphering the microbial landscape of lower respiratory tract infections: insights from metagenomics and machine learning.

Frontiers in cellular and infection microbiology May 23, 2024
BACKGROUND: Lower respiratory tract infections represent prevalent ailments. Nonetheless, current comprehension of the microbial ecosystems within the lower respiratory tract remains incomplete and necessitates further comprehensive assessment. Lever...
High-Throughput Nucleotide Sequencing Metagenomics Respiratory Tract Infections Aged, 80 and over Adolescent Female Male Young Adult Bacteria Bronchoalveolar Lavage Fluid Humans Hospitalization Adult Middle Aged Bronchiectasis Microbiota Machine Learning Lung Aged Metagenome
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WilsonGenAI a deep learning approach to classify pathogenic variants in Wilson Disease.

PloS one May 17, 2024
BACKGROUND: Advances in Next Generation Sequencing have made rapid variant discovery and detection widely accessible. To facilitate a better understanding of the nature of these variants, American College of Medical Genetics and Genomics and the Asso...
Copper-Transporting ATPases Genetic Variation Hepatolenticular Degeneration Humans High-Throughput Nucleotide Sequencing Algorithms Deep Learning
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ARGNet: using deep neural networks for robust identification and classification of antibiotic resistance genes from sequences.

Microbiome May 9, 2024
BACKGROUND: Emergence of antibiotic resistance in bacteria is an important threat to global health. Antibiotic resistance genes (ARGs) are some of the key components to define bacterial resistance and their spread in different environments. Identific...
Deep Learning Bacteria Computational Biology Drug Resistance, Microbial High-Throughput Nucleotide Sequencing Genes, Bacterial Neural Networks, Computer Humans Anti-Bacterial Agents Drug Resistance, Bacterial
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Prediction and causal inference of hyperuricemia using gut microbiota.

Scientific reports Apr 30, 2024
Hyperuricemia (HUA) is a symptom of high blood uric acid (UA) levels, which causes disorders such as gout and renal urinary calculus. Prolonged HUA is often associated with hypertension, atherosclerosis, diabetes mellitus, and chronic kidney disease....
High-Throughput Nucleotide Sequencing RNA, Ribosomal, 16S Hyperuricemia Uric Acid Female Adult Male Middle Aged Feces Gastrointestinal Microbiome Humans Machine Learning
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Automating the Illumina DNA library preparation kit for whole genome sequencing applications on the flowbot ONE liquid handler robot.

Scientific reports Apr 8, 2024
Whole-genome sequencing (WGS) is currently making its transition from research tool into routine (clinical) diagnostic practice. The workflow for WGS includes the highly labor-intensive library preparations (LP), one of the most critical steps in the...
Humans Reproducibility of Results Workflow Whole Genome Sequencing High-Throughput Nucleotide Sequencing Lipopolysaccharides Robotics DNA Gene Library
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A signal processing and deep learning framework for methylation detection using Oxford Nanopore sequencing.

Nature communications Feb 16, 2024
Oxford Nanopore sequencing can detect DNA methylations from ionic current signal of single molecules, offering a unique advantage over conventional methods. Additionally, adaptive sampling, a software-controlled enrichment method for targeted sequenc...
Sequence Analysis, DNA DNA Methylation High-Throughput Nucleotide Sequencing Nanopores Nanopore Sequencing Deep Learning
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MAC-ErrorReads: machine learning-assisted classifier for filtering erroneous NGS reads.

BMC bioinformatics Feb 7, 2024
BACKGROUND: The rapid advancement of next-generation sequencing (NGS) machines in terms of speed and affordability has led to the generation of a massive amount of biological data at the expense of data quality as errors become more prevalent. This i...
Artificial Intelligence Bayes Theorem High-Throughput Nucleotide Sequencing Arabidopsis Escherichia coli Machine Learning Software Staphylococcus aureus Algorithms Sequence Analysis, DNA
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Revolutionizing Synthetic Antibody Design: Harnessing Artificial Intelligence and Deep Sequencing Big Data for Unprecedented Advances.

Molecular biotechnology Feb 3, 2024
Synthetic antibodies (Abs) represent a category of engineered proteins meticulously crafted to replicate the functions of their natural counterparts. Such Abs are generated in vitro, enabling advanced molecular alterations associated with antigen rec...
Protein Engineering Antibodies High-Throughput Nucleotide Sequencing Humans Artificial Intelligence Big Data
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