AIMC Topic: Deep Learning

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Foundation models for EEG decoding: current progress and prospective research.

Journal of neural engineering
Electroencephalography (EEG) records the spontaneous electrical activity in the brain. Despite the growing application of deep learning in EEG decoding, traditional methods still rely heavily on supervised learning, which is often limited by task spe...

OneProt: Towards multi-modal protein foundation models via latent space alignment of sequence, structure, binding sites and text encoders.

PLoS computational biology
Recent advances in Artificial Intelligence have enabled multi-modal systems to model and translate diverse information spaces. Extending beyond text and vision, we introduce OneProt, a multi-modal Deep Learning model for proteins that integrates stru...

Comparing machine learning, deep learning, and reinforcement learning performance in Culex pipiens predictive modeling.

PloS one
Several machine learning (ML) and deep learning (DL) methods have been used to predict the presence of species in classification problems. Another set of methods, called reinforcement learning (RL), has been used in training agents to perform various...

A comparative study of MLP and LSTM neural networks for shale gas production prediction based on numerical simulation data.

PloS one
Accurate prediction of shale gas production is essential for optimizing reservoir development and improving production efficiency. In this study, a numerical simulation model was first developed to systematically calculate daily shale gas production ...

Charting the virosphere: computational synergies of AI and bioinformatics in viral discovery and evolution.

Journal of virology
The advancement of metagenomic sequencing has revealed a vast viral diversity while simultaneously exposing limitations of homology-based tools such as BLAST and HMMER, which often fail to detect highly divergent viral genomes. The integration of art...

An enhanced deep learning-based framework for diagnosing apple leaf diseases.

Scientific reports
Timely and correct identification of diseases in the apple leaf is also important in protecting crop production and sustaining agriculture. This paper introduces E-YOLOv8, a lightweight improved version of YOLOv8, that can be implemented in real-time...

Detection of Polyphonic Alarm Sounds From Medical Devices Using Frequency-Enhanced Deep Learning: Simulation Study.

JMIR medical informatics
BACKGROUND: Although an increasing number of bedside medical devices are equipped with wireless connections for reliable notifications, many nonnetworked devices remain effective at detecting abnormal patient conditions and alerting medical staff thr...

SpaMWGDA: Identifying spatial domains of spatial transcriptomes using multi-view weighted fusion graph convolutional network and data augmentation.

PLoS computational biology
The rapid development of spatial transcriptomics (ST) has made it possible to effectively integrate gene expression and spatial information of cells and accurately identify spatial domains. A large number of deep learning (DL)-based methods have been...

Improved CRISPR/Cas9 off-target prediction with DNABERT and epigenetic features.

PloS one
CRISPR/Cas9 is a powerful genome editing tool, but its clinical application is hindered by off-target effects. Accurate computational prediction of these unintended edits is crucial for ensuring the safety and efficacy of therapeutic applications. Wh...

Machine-learning models based on histological images from healthy donors identify imageQTLs and predict chronological age.

Proceedings of the National Academy of Sciences of the United States of America
Histological images offer a wealth of data. Mining these data holds significant potential for enhancing disease diagnosis and prognosis, though challenges remain, especially in noncancer contexts. In this study, we developed a statistical framework t...