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Sparsity-Penalized Stacked Denoising Autoencoders for Imputing Single-Cell RNA-Seq Data.

Genes
Single-cell RNA-seq (scRNA-seq) is quite prevalent in studying transcriptomes, but it suffers from excessive zeros, some of which are true, but others are false. False zeros, which can be seen as missing data, obstruct the downstream analysis of sing...

iMethyl-Deep: N6 Methyladenosine Identification of Yeast Genome with Automatic Feature Extraction Technique by Using Deep Learning Algorithm.

Genes
One of the most common and well studied post-transcription modifications in RNAs is N6-methyladenosine (m6A) which has been involved with a wide range of biological processes. Over the past decades, N6-methyladenosine produced some positive consequen...

Predicting cancer origins with a DNA methylation-based deep neural network model.

PloS one
Cancer origin determination combined with site-specific treatment of metastatic cancer patients is critical to improve patient outcomes. Existing pathology and gene expression-based techniques often have limited performance. In this study, we develop...

SDLDA: lncRNA-disease association prediction based on singular value decomposition and deep learning.

Methods (San Diego, Calif.)
In recent years, accumulating studies have shown that long non-coding RNAs (lncRNAs) not only play an important role in the regulation of various biological processes but also are the foundation for understanding mechanisms of human diseases. Due to ...

Grab-AD: Generalizability and reproducibility of altered brain activity and diagnostic classification in Alzheimer's Disease.

Human brain mapping
Alzheimer's disease (AD) is associated with disruptions in brain activity and networks. However, there is substantial inconsistency among studies that have investigated functional brain alterations in AD; such contradictions have hindered efforts to ...

Clinically Applicable AI System for Accurate Diagnosis, Quantitative Measurements, and Prognosis of COVID-19 Pneumonia Using Computed Tomography.

Cell
Many COVID-19 patients infected by SARS-CoV-2 virus develop pneumonia (called novel coronavirus pneumonia, NCP) and rapidly progress to respiratory failure. However, rapid diagnosis and identification of high-risk patients for early intervention are ...

Estimation of age in unidentified patients via chest radiography using convolutional neural network regression.

Emergency radiology
PURPOSE: Patient age has important clinical utility for refining a differential diagnosis in radiology. Here, we evaluate the potential for convolutional neural network models to predict patient age based on anterior-posterior chest radiographs for i...

Analysis of gene expression profiles of lung cancer subtypes with machine learning algorithms.

Biochimica et biophysica acta. Molecular basis of disease
Lung cancer is one of the most common cancer types worldwide and causes more than one million deaths annually. Lung adenocarcinoma (AC) and lung squamous cell cancer (SCC) are two major lung cancer subtypes and have different characteristics in sever...

From a deep learning model back to the brain-Identifying regional predictors and their relation to aging.

Human brain mapping
We present a Deep Learning framework for the prediction of chronological age from structural magnetic resonance imaging scans. Previous findings associate increased brain age with neurodegenerative diseases and higher mortality rates. However, the im...