AIMC Topic: Deep Learning

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DeepSF-4mC: A deep learning model for predicting DNA cytosine 4mC methylation sites leveraging sequence features.

Computers in biology and medicine
N-methylcytosine (4mC) is a DNA modification involving the addition of a methyl group to the fourth nitrogen atom of the cytosine base. This modification may influence gene regulation, providing potential insights into gene control mechanisms. Tradit...

Multiscale biochemical mapping of the brain through deep-learning-enhanced high-throughput mass spectrometry.

Nature methods
Spatial omics technologies can reveal the molecular intricacy of the brain. While mass spectrometry imaging (MSI) provides spatial localization of compounds, comprehensive biochemical profiling at a brain-wide scale in three dimensions by MSI with si...

A signal processing and deep learning framework for methylation detection using Oxford Nanopore sequencing.

Nature communications
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...

RUBICON: a framework for designing efficient deep learning-based genomic basecallers.

Genome biology
Nanopore sequencing generates noisy electrical signals that need to be converted into a standard string of DNA nucleotide bases using a computational step called basecalling. The performance of basecalling has critical implications for all later step...

Automatic de-identification of French electronic health records: a cost-effective approach exploiting distant supervision and deep learning models.

BMC medical informatics and decision making
BACKGROUND: Electronic health records (EHRs) contain valuable information for clinical research; however, the sensitive nature of healthcare data presents security and confidentiality challenges. De-identification is therefore essential to protect pe...

Effects of various cross-linked collagen scaffolds on wound healing in rats model by deep-learning CNN.

Computer methods in biomechanics and biomedical engineering
Scar tissue is connective tissue formed on the wound during the wound-healing process. The most significant distinction between scar tissue and normal tissue is the appearance of covalent cross-linking and the amount of collagen fibers in the tissue....

Machine Learning and Deep Learning Applications in Magnetic Particle Imaging.

Journal of magnetic resonance imaging : JMRI
In recent years, magnetic particle imaging (MPI) has emerged as a promising imaging technique depicting high sensitivity and spatial resolution. It originated in the early 2000s where it proposed a new approach to challenge the low spatial resolution...

Learning CT-free attenuation-corrected total-body PET images through deep learning.

European radiology
OBJECTIVES: Total-body PET/CT scanners with long axial fields of view have enabled unprecedented image quality and quantitative accuracy. However, the ionizing radiation from CT is a major issue in PET imaging, which is more evident with reduced radi...

Low-tube-voltage whole-body CT angiography with extremely low iodine dose: a comparison between hybrid-iterative reconstruction and deep-learning image-reconstruction algorithms.

Clinical radiology
AIM: To evaluate arterial enhancement, its depiction, and image quality in low-tube potential whole-body computed tomography (CT) angiography (CTA) with extremely low iodine dose and compare the results with those obtained by hybrid-iterative reconst...