Genetics

Recent Progress of Machine Learning in Gene Therapy.

With new developments in biomedical technology, it is now a viable therapeutic treatment to alter genes with techniques like CRISPR. At the same time, it is increasingly cheaper to perform whole genome sequencing, resulting in rapid advancement in gene therapy and editing in precision medicine. Understanding the current industry and academic applications of gene therapy provides an important backd...

Hubness weighted SVM ensemble for prediction of breast cancer subtypes.

BACKGROUND: Breast cancer is a major disease causing panic among women worldwide. Since gene mutations are the root cause for cancer development, analyzing gene expressions can give more insights into various phenotype of cancer treatments. Breast Cancer subtype prediction from gene expression data can provide more information for cancer treatment decisions.

Predicting RNA Secondary Structure Using In Vitro and In Vivo Data.

The new flow of high-throughput RNA secondary structure data coming from different techniques allowed the further development of machine learning appr...

Introduction to Deep Learning in Clinical Neuroscience.

The use of deep learning (DL) is rapidly increasing in clinical neuroscience. The term denotes models with multiple sequential layers of learning algo...

UBNet: Deep learning-based approach for automatic X-ray image detection of pneumonia and COVID-19 patients.

BACKGROUND: Analysis of chest X-ray images is one of the primary standards in diagnosing patients with COVID-19 and pneumonia, which is faster than us...

The diagnostic performance of deep-learning-based CT severity score to identify COVID-19 pneumonia.

OBJECTIVE: To determine the diagnostic accuracy of a deep-learning (DL)-based algorithm using chest computed tomography (CT) scans for the rapid diagn...

A Method for Localizing Non-Reference Sequences to the Human Genome.

As the last decade of human genomics research begins to bear the fruit of advancements in precision medicine, it is important to ensure that genomics'...

Plant Reactome and PubChem: The Plant Pathway and (Bio)Chemical Entity Knowledgebases.

Plant Reactome (https://plantreactome.gramene.org) and PubChem ( https://pubchem.ncbi.nlm.nih.gov ) are two reference data portals and resources for c...

GRNUlar: A Deep Learning Framework for Recovering Single-Cell Gene Regulatory Networks.

We propose GRNUlar, a novel deep learning framework for supervised learning of gene regulatory networks (GRNs) from single-cell RNA-Sequencing (scRNA-...

Genome-wide association study-based prediction of atrial fibrillation using artificial intelligence.

OBJECTIVE: We previously reported early-onset atrial fibrillation (AF) associated genetic loci among a Korean population. We explored whether the AF-a...

Optimized chest X-ray image semantic segmentation networks for COVID-19 early detection.

BACKGROUND: Although detection of COVID-19 from chest X-ray radiography (CXR) images is faster than PCR sputum testing, the accuracy of detecting COVI...

Inferring Cell-type-specific Genes of Lung Cancer Based on Deep Learning.

BACKGROUND: Lung cancer is cancer with the highest incidence in the world, and there is obvious heterogeneity within its tumor. The emergence of singl...

Construction of Molecular Robots from Microtubules for Programmable Swarming.

Swarm robotics has been attracting much attention in recent years in the field of robotics. This chapter describes a methodology for the construction ...

Machine Learning-driven Protein Library Design: A Path Toward Smarter Libraries.

Proteins are small yet valuable biomolecules that play a versatile role in therapeutics and diagnostics. The intricate sequence-structure-function par...

Predicting antibody binders and generating synthetic antibodies using deep learning.

The antibody drug field has continually sought improvements to methods for candidate discovery and engineering. Historically, most such methods have b...

[Percellome Project: research on molecular mechanisms of toxicological responses based on transcriptomics and epigenetics].

We are constructing the "Percellome Database" containing many transcriptomes of mice exposed to a series of chemicals to elucidate the molecular mecha...

Application of Correlation Pre-Filtering Neural Network to DNA Methylation Data: Biological Aging Prediction.

We introduce the CPFNN (Correlation Pre-Filtering Neural Network) for biological age prediction based on blood DNA methylation data. The model is buil...

m1A-pred: Prediction of Modified 1-methyladenosine Sites in RNA Sequences through Artificial Intelligence.

BACKGROUND: The process of nucleotides modification or methyl groups addition to nucleotides is known as post-transcriptional modification (PTM). 1-me...

Computational Approaches for Investigating Disease-causing Mutations in Membrane Proteins: Database Development, Analysis and Prediction.

Membrane proteins (MPs) play an essential role in a broad range of cellular functions, serving as transporters, enzymes, receptors, and communicators,...

Deciphering the regulatory syntax of genomic DNA with deep learning.

An organism's genome contains many sequence regions that perform diverse functions. Examples of such regions include genes, promoters, enhancers, and ...