AIMC Topic: Deep Learning

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Predicting potential microbe-disease associations based on multi-source features and deep learning.

Briefings in bioinformatics
Studies have confirmed that the occurrence of many complex diseases in the human body is closely related to the microbial community, and microbes can affect tumorigenesis and metastasis by regulating the tumor microenvironment. However, there are sti...

DeepAlgPro: an interpretable deep neural network model for predicting allergenic proteins.

Briefings in bioinformatics
Allergies have become an emerging public health problem worldwide. The most effective way to prevent allergies is to find the causative allergen at the source and avoid re-exposure. However, most of the current computational methods used to identify ...

iAMPCN: a deep-learning approach for identifying antimicrobial peptides and their functional activities.

Briefings in bioinformatics
Antimicrobial peptides (AMPs) are short peptides that play crucial roles in diverse biological processes and have various functional activities against target organisms. Due to the abuse of chemical antibiotics and microbial pathogens' increasing res...

An integrated deep learning framework for the interpretation of untargeted metabolomics data.

Briefings in bioinformatics
Untargeted metabolomics is gaining widespread applications. The key aspects of the data analysis include modeling complex activities of the metabolic network, selecting metabolites associated with clinical outcome and finding critical metabolic pathw...

DKADE: a novel framework based on deep learning and knowledge graph for identifying adverse drug events and related medications.

Briefings in bioinformatics
Adverse drug events (ADEs) are common in clinical practice and can cause significant harm to patients and increase resource use. Natural language processing (NLP) has been applied to automate ADE detection, but NLP systems become less adaptable when ...

ProgCAE: a deep learning-based method that integrates multi-omics data to predict cancer subtypes.

Briefings in bioinformatics
Determining cancer subtypes and estimating patient prognosis are crucial for cancer research. The massive amount of multi-omics data generated by high-throughput sequencing technology is an important resource for cancer prognosis. Deep learning metho...

Recent trends in RNA informatics: a review of machine learning and deep learning for RNA secondary structure prediction and RNA drug discovery.

Briefings in bioinformatics
Computational analysis of RNA sequences constitutes a crucial step in the field of RNA biology. As in other domains of the life sciences, the incorporation of artificial intelligence and machine learning techniques into RNA sequence analysis has gain...

Fast and low-dose medical imaging generation empowered by hybrid deep-learning and iterative reconstruction.

Cell reports. Medicine
Fast and low-dose reconstructions of medical images are highly desired in clinical routines. We propose a hybrid deep-learning and iterative reconstruction (hybrid DL-IR) framework and apply it for fast magnetic resonance imaging (MRI), fast positron...

Development of a deep learning-based error detection system without error dose maps in the patient-specific quality assurance of volumetric modulated arc therapy.

Journal of radiation research
To detect errors in patient-specific quality assurance (QA) for volumetric modulated arc therapy (VMAT), we proposed an error detection method based on dose distribution analysis using unsupervised deep learning approach and analyzed 161 prostate VMA...

Whole-brain radiotherapy associated with structural changes resembling aging as determined by anatomic surface-based deep learning.

Neuro-oncology
BACKGROUND: Brain metastases are the most common intracranial tumors in adults and are associated with significant morbidity and mortality. Whole-brain radiotherapy (WBRT) is used frequently in patients for palliation, but can result in neurocognitiv...