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Reference Standards

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Standardization of assay representation in the Ontology for Biomedical Investigations.

Database : the journal of biological databases and curation
The Ontology for Biomedical Investigations (OBI) underwent a focused review of assay term annotations, logic and hierarchy with a goal to improve and standardize these terms. As a result, inconsistencies in W3C Web Ontology Language (OWL) expressions...

Improving reference standards for validation of AI-based radiography.

The British journal of radiology
OBJECTIVE: Demonstrate the importance of combining multiple readers' opinions, in a context-aware manner, when establishing the reference standard for validation of artificial intelligence (AI) applications for, chest radiographs. By comparing indiv...

Mapping single-cell data to reference atlases by transfer learning.

Nature biotechnology
Large single-cell atlases are now routinely generated to serve as references for analysis of smaller-scale studies. Yet learning from reference data is complicated by batch effects between datasets, limited availability of computational resources and...

Deep learning-based transformation of H&E stained tissues into special stains.

Nature communications
Pathology is practiced by visual inspection of histochemically stained tissue slides. While the hematoxylin and eosin (H&E) stain is most commonly used, special stains can provide additional contrast to different tissue components. Here, we demonstra...

Deep learning-based classification and structure name standardization for organ at risk and target delineations in prostate cancer radiotherapy.

Journal of applied clinical medical physics
Radiotherapy (RT) datasets can suffer from variations in annotation of organ at risk (OAR) and target structures. Annotation standards exist, but their description for prostate targets is limited. This restricts the use of such data for supervised ma...

Pivotal Evaluation of an Artificial Intelligence System for Autonomous Detection of Referrable and Vision-Threatening Diabetic Retinopathy.

JAMA network open
IMPORTANCE: Diabetic retinopathy (DR) is a leading cause of blindness in adults worldwide. Early detection and intervention can prevent blindness; however, many patients do not receive their recommended annual diabetic eye examinations, primarily owi...

Chemometric analysis in Raman spectroscopy from experimental design to machine learning-based modeling.

Nature protocols
Raman spectroscopy is increasingly being used in biology, forensics, diagnostics, pharmaceutics and food science applications. This growth is triggered not only by improvements in the computational and experimental setups but also by the development ...

Robotic high-throughput biomanufacturing and functional differentiation of human pluripotent stem cells.

Stem cell reports
Efficient translation of human induced pluripotent stem cells (hiPSCs) requires scalable cell manufacturing strategies for optimal self-renewal and functional differentiation. Traditional manual cell culture is variable and labor intensive, posing ch...

A novel method for micropollutant quantification using deep learning and multi-objective optimization.

Water research
Micropollutants (MPs) released into aquatic ecosystems have adverse effects on public health. Hence, monitoring and managing MPs in aquatic systems are imperative. MPs can be quantified by high-resolution mass spectrometry (HRMS) with stable isotope-...