AIMC Topic: Software

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Prediction task guided representation learning of medical codes in EHR.

Journal of biomedical informatics
There have been rapidly growing applications using machine learning models for predictive analytics in Electronic Health Records (EHR) to improve the quality of hospital services and the efficiency of healthcare resource utilization. A fundamental an...

GeNets: a unified web platform for network-based genomic analyses.

Nature methods
Functional genomics networks are widely used to identify unexpected pathway relationships in large genomic datasets. However, it is challenging to compare the signal-to-noise ratios of different networks and to identify the optimal network with which...

SeqSVM: A Sequence-Based Support Vector Machine Method for Identifying Antioxidant Proteins.

International journal of molecular sciences
Antioxidant proteins can be beneficial in disease prevention. More attention has been paid to the functionality of antioxidant proteins. Therefore, identifying antioxidant proteins is important for the study. In our work, we propose a computational m...

From lexical regularities to axiomatic patterns for the quality assurance of biomedical terminologies and ontologies.

Journal of biomedical informatics
Ontologies and terminologies have been identified as key resources for the achievement of semantic interoperability in biomedical domains. The development of ontologies is performed as a joint work by domain experts and knowledge engineers. The maint...

Machine learning algorithms for outcome prediction in (chemo)radiotherapy: An empirical comparison of classifiers.

Medical physics
PURPOSE: Machine learning classification algorithms (classifiers) for prediction of treatment response are becoming more popular in radiotherapy literature. General Machine learning literature provides evidence in favor of some classifier families (r...

PrESOgenesis: A two-layer multi-label predictor for identifying fertility-related proteins using support vector machine and pseudo amino acid composition approach.

Scientific reports
Successful spermatogenesis and oogenesis are the two genetically independent processes preceding embryo development. To date, several fertility-related proteins have been described in mammalian species. Nevertheless, further studies are required to d...

Fuzzy decision support systems to diagnose musculoskeletal disorders: A systematic literature review.

Computer methods and programs in biomedicine
BACKGROUND AND OBJECTIVE: Musculoskeletal disorders (MSDs) are one of the most important causes of disability with a high prevalence. The accurate and timely diagnosis of these disorders is often difficult. Clinical decision support systems (CDSSs) c...

Leveraging multiple gene networks to prioritize GWAS candidate genes via network representation learning.

Methods (San Diego, Calif.)
Genome-wide association studies (GWAS) have successfully discovered a number of disease-associated genetic variants in the past decade, providing an unprecedented opportunity for deciphering genetic basis of human inherited diseases. However, it is s...

A portable structural analysis library for reaction networks.

Bio Systems
The topology of a reaction network can have a significant influence on the network's dynamical properties. Such influences can include constraints on network flows and concentration changes or more insidiously result in the emergence of feedback loop...

Evolutionary image simplification for lung nodule classification with convolutional neural networks.

International journal of computer assisted radiology and surgery
PURPOSE: Understanding decisions of deep learning techniques is important. Especially in the medical field, the reasons for a decision in a classification task are as crucial as the pure classification results. In this article, we propose a new appro...