AIMC Topic: Software

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DES-Mutation: System for Exploring Links of Mutations and Diseases.

Scientific reports
During cellular division DNA replicates and this process is the basis for passing genetic information to the next generation. However, the DNA copy process sometimes produces a copy that is not perfect, that is, one with mutations. The collection of ...

Evaluation of automatic video captioning using direct assessment.

PloS one
We present Direct Assessment, a method for manually assessing the quality of automatically-generated captions for video. Evaluating the accuracy of video captions is particularly difficult because for any given video clip there is no definitive groun...

Predicting improved protein conformations with a temporal deep recurrent neural network.

PloS one
Accurate protein structure prediction from amino acid sequence is still an unsolved problem. The most reliable methods centre on template based modelling. However, the accuracy of these models entirely depends on the availability of experimentally re...

Artificial intelligence assistance for fetal head biometry: Assessment of automated measurement software.

Diagnostic and interventional imaging
PURPOSE: To evaluate the feasibility and reproducibility of artificial intelligence software (Smartplanes) to automatically identify the transthalamic plane from 3D ultrasound volumes and to measure the biparietal diameter (BPD) and head circumferenc...

Can Deep Learning Improve Genomic Prediction of Complex Human Traits?

Genetics
The genetic analysis of complex traits does not escape the current excitement around artificial intelligence, including a renewed interest in "deep learning" (DL) techniques such as Multilayer Perceptrons (MLPs) and Convolutional Neural Networks (CNN...

CEA: Combination-based gene set functional enrichment analysis.

Scientific reports
Functional enrichment analysis is a fundamental and challenging task in bioinformatics. Most of the current enrichment analysis approaches individually evaluate functional terms and often output a list of enriched terms with high similarity and redun...

Comparing Multiple Machine Learning Algorithms and Metrics for Estrogen Receptor Binding Prediction.

Molecular pharmaceutics
Many chemicals that disrupt endocrine function have been linked to a variety of adverse biological outcomes. However, screening for endocrine disruption using in vitro or in vivo approaches is costly and time-consuming. Computational methods, e.g., q...

Fréchet ChemNet Distance: A Metric for Generative Models for Molecules in Drug Discovery.

Journal of chemical information and modeling
The new wave of successful generative models in machine learning has increased the interest in deep learning driven de novo drug design. However, method comparison is difficult because of various flaws of the currently employed evaluation metrics. We...

Controlling Complexity of Cerebral Cortex Simulations-I: CxSystem, a Flexible Cortical Simulation Framework.

Neural computation
Simulation of the cerebral cortex requires a combination of extensive domain-specific knowledge and efficient software. However, when the complexity of the biological system is combined with that of the software, the likelihood of coding errors incre...

A deep convolutional neural network approach for astrocyte detection.

Scientific reports
Astrocytes are involved in various brain pathologies including trauma, stroke, neurodegenerative disorders such as Alzheimer's and Parkinson's diseases, or chronic pain. Determining cell density in a complex tissue environment in microscopy images an...