AIMC Topic:
Software

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Knodle: A Support Vector Machines-Based Automatic Perception of Organic Molecules from 3D Coordinates.

Journal of chemical information and modeling
Here we address the problem of the assignment of atom types and bond orders in low molecular weight compounds. For this purpose, we have developed a prediction model based on nonlinear Support Vector Machines (SVM), implemented in a KNOwledge-Driven ...

Radiation Dose Estimation by Automated Cytogenetic Biodosimetry.

Radiation protection dosimetry
The dose from ionizing radiation exposure can be interpolated from a calibration curve fit to the frequency of dicentric chromosomes (DCs) at multiple doses. As DC counts are manually determined, there is an acute need for accurate, fully automated b...

Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights.

PLoS computational biology
Shotgun metagenomic analysis of the human associated microbiome provides a rich set of microbial features for prediction and biomarker discovery in the context of human diseases and health conditions. However, the use of such high-resolution microbia...

An Artificial Neural Network Based Analysis of Factors Controlling Particle Size in a Virgin Coconut Oil-Based Nanoemulsion System Containing Copper Peptide.

PloS one
A predictive model of a virgin coconut oil (VCO) nanoemulsion system for the topical delivery of copper peptide (an anti-aging compound) was developed using an artificial neural network (ANN) to investigate the factors that influence particle size. F...

A new biarticular actuator design facilitates control of leg function in BioBiped3.

Bioinspiration & biomimetics
Bioinspired legged locomotion comprises different aspects, such as (i) benefiting from reduced complexity control approaches as observed in humans/animals, (ii) combining embodiment with the controllers and (iii) reflecting neural control mechanisms....

Design of Biomedical Robots for Phenotype Prediction Problems.

Journal of computational biology : a journal of computational molecular cell biology
Genomics has been used with varying degrees of success in the context of drug discovery and in defining mechanisms of action for diseases like cancer and neurodegenerative and rare diseases in the quest for orphan drugs. To improve its utility, accur...

A unified software framework for deriving, visualizing, and exploring abstraction networks for ontologies.

Journal of biomedical informatics
Software tools play a critical role in the development and maintenance of biomedical ontologies. One important task that is difficult without software tools is ontology quality assurance. In previous work, we have introduced different kinds of abstra...

Knowledge Author: facilitating user-driven, domain content development to support clinical information extraction.

Journal of biomedical semantics
BACKGROUND: Clinical Natural Language Processing (NLP) systems require a semantic schema comprised of domain-specific concepts, their lexical variants, and associated modifiers to accurately extract information from clinical texts. An NLP system leve...

tarSVM: Improving the accuracy of variant calls derived from microfluidic PCR-based targeted next generation sequencing using a support vector machine.

BMC bioinformatics
BACKGROUND: Targeted sequencing of discrete gene sets is a cost effective strategy to screen subjects for monogenic forms of disease. One method to achieve this pairs microfluidic PCR with next generation sequencing. The PCR step of this pipeline cre...

TaggerOne: joint named entity recognition and normalization with semi-Markov Models.

Bioinformatics (Oxford, England)
MOTIVATION: Text mining is increasingly used to manage the accelerating pace of the biomedical literature. Many text mining applications depend on accurate named entity recognition (NER) and normalization (grounding). While high performing machine le...