AI Medical Compendium Journal:
GigaScience

Showing 1 to 10 of 69 articles

MLcps: machine learning cumulative performance score for classification problems.

GigaScience
BACKGROUND: Assessing the performance of machine learning (ML) models requires careful consideration of the evaluation metrics used. It is often necessary to utilize multiple metrics to gain a comprehensive understanding of a trained model's performa...

Variability analysis of LC-MS experimental factors and their impact on machine learning.

GigaScience
BACKGROUND: Machine learning (ML) technologies, especially deep learning (DL), have gained increasing attention in predictive mass spectrometry (MS) for enhancing the data-processing pipeline from raw data analysis to end-user predictions and rescori...

SpheroScan: a user-friendly deep learning tool for spheroid image analysis.

GigaScience
BACKGROUND: In recent years, 3-dimensional (3D) spheroid models have become increasingly popular in scientific research as they provide a more physiologically relevant microenvironment that mimics in vivo conditions. The use of 3D spheroid assays has...

Machine learning-based feature selection to search stable microbial biomarkers: application to inflammatory bowel disease.

GigaScience
BACKGROUND: Biomarker discovery exploiting feature importance of machine learning has risen recently in the microbiome landscape with its high predictive performance in several disease states. To have a concrete selection among a high number of featu...

Confound-leakage: confound removal in machine learning leads to leakage.

GigaScience
BACKGROUND: Machine learning (ML) approaches are a crucial component of modern data analysis in many fields, including epidemiology and medicine. Nonlinear ML methods often achieve accurate predictions, for instance, in personalized medicine, as they...

Deep neural networks with knockoff features identify nonlinear causal relations and estimate effect sizes in complex biological systems.

GigaScience
BACKGROUND: Learning the causal structure helps identify risk factors, disease mechanisms, and candidate therapeutics for complex diseases. However, although complex biological systems are characterized by nonlinear associations, existing bioinformat...

Multiview child motor development dataset for AI-driven assessment of child development.

GigaScience
BACKGROUND: Children's motor development is a crucial tool for assessing developmental levels, identifying developmental disorders early, and taking appropriate action. Although the Korean Developmental Screening Test for Infants and Children (K-DST)...

CoVEffect: interactive system for mining the effects of SARS-CoV-2 mutations and variants based on deep learning.

GigaScience
BACKGROUND: Literature about SARS-CoV-2 widely discusses the effects of variations that have spread in the past 3 years. Such information is dispersed in the texts of several research articles, hindering the possibility of practically integrating it ...

An accessible infrastructure for artificial intelligence using a Docker-based JupyterLab in Galaxy.

GigaScience
BACKGROUND: Artificial intelligence (AI) programs that train on large datasets require powerful compute infrastructure consisting of several CPU cores and GPUs. JupyterLab provides an excellent framework for developing AI programs, but it needs to be...

Cell type-specific interpretation of noncoding variants using deep learning-based methods.

GigaScience
Interpretation of noncoding genomic variants is one of the most important challenges in human genetics. Machine learning methods have emerged recently as a powerful tool to solve this problem. State-of-the-art approaches allow prediction of transcrip...