Genetics

Classification accuracy of machine learning algorithms for Chinese local cattle breeds using genomic markers.

Accurate breed classification is required for the conservation and utilization of farm animal genetic resources. Traditional classification methods mainly rely on phenotypic characterization. However, it is difficult to distinguish between the highly similar breeds due to the challenges in qualifying the phenotypic character. Machine learning algorithms show unique advantages in breed classificati...

Deciphering lung adenocarcinoma prognosis and immunotherapy response through an AI-driven stemness-related gene signature.

Lung adenocarcinoma (LUAD) is a leading cause of cancer-related deaths, and improving prognostic accuracy is vital for personalised treatment approaches, especially in the context of immunotherapy. In this study, we constructed an artificial intelligence (AI)-driven stemness-related gene signature (SRS) that deciphered LUAD prognosis and immunotherapy response. CytoTRACE analysis of single-cell RN...

Multi-task Learning Graph Neural Networks for Cancer Prognosis Prediction with Genomic Data.

Providing robust prognosis predictions for cancers with limited data samples remains a challenge for precision oncology. In this study, we propose a n...

Automated Abnormality Detection in Patient Retinal Function: A Deep Learning-Powered Electroretinogram Analysis System.

The electroretinogram (ERG) is an ophthalmic electrophysiology test designed to objectively measure the electrical response of the photoreceptor cells...

Geno-GCN: A Genome-specific Graph Convolutional Network for Diabetes Prediction.

Drawing inspiration from convolutional neural networks, graph convolutional networks (GCNs) have been implemented in various applications. Yet, the in...

A Novel 6-DOF Parallel Continuum Robot with Enhanced Reachable Workspace and Range of Twisting.

The Parallel Continuum Robot (PCR) is an emerging class of soft robotics distinguished by features such as flexibility, safety, compactness, and dexte...

Classification of Abnormal Gaits with Machine Learning Algorithms using Sensor-Inherited Insoles.

The digital health industry's interest in gait analysis has driven research into sensor-enabled insoles for practical, everyday gait monitoring. Tradi...

Detection of pre-mRNA involved in abnormal splicing using Graph Neural Network and Nearest Correlation Method.

BACKGROUND: DNA is the building block of genetic information, and is composed of alternating sequences of exons with genetic information and introns w...

Changes in pressure of strap while walking in a robotic gait training system.

Exoskeletons have been developed and widely used for medical, industrial, military applications. Since the exoskeletons are designed to provide the us...

Identifying new cancer genes based on the integration of annotated gene sets via hypergraph neural networks.

MOTIVATION: Identifying cancer genes remains a significant challenge in cancer genomics research. Annotated gene sets encode functional associations a...

CODEX: COunterfactual Deep learning for the in silico EXploration of cancer cell line perturbations.

MOTIVATION: High-throughput screens (HTS) provide a powerful tool to decipher the causal effects of chemical and genetic perturbations on cancer cell ...

Prompting Whole Slide Image Based Genetic Biomarker Prediction

Prediction of genetic biomarkers, e.g., microsatellite instability and BRAF in colorectal cancer is crucial for clinical decision making. In this pa...

A compact model of Escherichia coli core and biosynthetic metabolism

Metabolic models condense biochemical knowledge about organisms in a structured and standardised way. As large-scale network reconstructions are rea...

Geneverse: A collection of Open-source Multimodal Large Language Models for Genomic and Proteomic Research

The applications of large language models (LLMs) are promising for biomedical and healthcare research. Despite the availability of open-source LLMs ...

GenoTEX: An LLM Agent Benchmark for Automated Gene Expression Data Analysis

Recent advancements in machine learning have significantly improved the identification of disease-associated genes from gene expression datasets. Ho...

Study of prognostic splicing factors in cancer using machine learning approaches.

Splicing factors (SFs) are the major RNA-binding proteins (RBPs) and key molecules that regulate the splicing of mRNA molecules through binding to mRN...

Comparison of Nested Geometry Treatments within GPU-Based Monte Carlo Neutron Transport Simulations of Fission Reactors

Monte Carlo (MC) neutron transport provides detailed estimates of radiological quantities within fission reactors. This method involves tracking ind...

RNA-FrameFlow: Flow Matching for de novo 3D RNA Backbone Design

We introduce RNA-FrameFlow, the first generative model for 3D RNA backbone design. We build upon SE(3) flow matching for protein backbone generation...

PathoLM: Identifying pathogenicity from the DNA sequence through the Genome Foundation Model

Pathogen identification is pivotal in diagnosing, treating, and preventing diseases, crucial for controlling infections and safeguarding public heal...

BIOSCAN-5M: A Multimodal Dataset for Insect Biodiversity

As part of an ongoing worldwide effort to comprehend and monitor insect biodiversity, this paper presents the BIOSCAN-5M Insect dataset to the machi...