AIMC Topic: Software

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Protein asparagine deamidation prediction based on structures with machine learning methods.

PloS one
Chemical stability is a major concern in the development of protein therapeutics due to its impact on both efficacy and safety. Protein "hotspots" are amino acid residues that are subject to various chemical modifications, including deamidation, isom...

Knowledge base and mini-expert platform for the diagnosis of inborn errors of metabolism.

Genetics in medicine : official journal of the American College of Medical Genetics
PurposeRecognizing individuals with inherited diseases can be difficult because signs and symptoms often overlap those of common medical conditions. Focusing on inborn errors of metabolism (IEMs), we present a method that brings the knowledge of high...

Deep convolutional neural networks for automatic classification of gastric carcinoma using whole slide images in digital histopathology.

Computerized medical imaging and graphics : the official journal of the Computerized Medical Imaging Society
Deep learning using convolutional neural networks is an actively emerging field in histological image analysis. This study explores deep learning methods for computer-aided classification in H&E stained histopathological whole slide images of gastric...

An Ensemble Multilabel Classification for Disease Risk Prediction.

Journal of healthcare engineering
It is important to identify and prevent disease risk as early as possible through regular physical examinations. We formulate the disease risk prediction into a multilabel classification problem. A novel Ensemble Label Power-set Pruned datasets Joint...

Imbalance-Aware Machine Learning for Predicting Rare and Common Disease-Associated Non-Coding Variants.

Scientific reports
Disease and trait-associated variants represent a tiny minority of all known genetic variation, and therefore there is necessarily an imbalance between the small set of available disease-associated and the much larger set of non-deleterious genomic v...

Intuitive control of mobile robots: an architecture for autonomous adaptive dynamic behaviour integration.

Cognitive processing
In this paper, we present a novel approach to human-robot control. Taking inspiration from behaviour-based robotics and self-organisation principles, we present an interfacing mechanism, with the ability to adapt both towards the user and the robotic...

Dead simple OWL design patterns.

Journal of biomedical semantics
BACKGROUND: Bio-ontologies typically require multiple axes of classification to support the needs of their users. Development of such ontologies can only be made scalable and sustainable by the use of inference to automate classification via consiste...

DeepNano: Deep recurrent neural networks for base calling in MinION nanopore reads.

PloS one
The MinION device by Oxford Nanopore produces very long reads (reads over 100 kBp were reported); however it suffers from high sequencing error rate. We present an open-source DNA base caller based on deep recurrent neural networks and show that the ...

Automated histological classification of whole-slide images of gastric biopsy specimens.

Gastric cancer : official journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association
BACKGROUND: Automated image analysis has been developed currently in the field of surgical pathology. The aim of the present study was to evaluate the classification accuracy of the e-Pathologist image analysis software.

An empirical analysis of ontology reuse in BioPortal.

Journal of biomedical informatics
Biomedical ontologies often reuse content (i.e., classes and properties) from other ontologies. Content reuse enables a consistent representation of a domain and reusing content can save an ontology author significant time and effort. Prior studies h...