AIMC Topic: Software

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An open-source solution for advanced imaging flow cytometry data analysis using machine learning.

Methods (San Diego, Calif.)
Imaging flow cytometry (IFC) enables the high throughput collection of morphological and spatial information from hundreds of thousands of single cells. This high content, information rich image data can in theory resolve important biological differe...

InteGO2: a web tool for measuring and visualizing gene semantic similarities using Gene Ontology.

BMC genomics
BACKGROUND: The Gene Ontology (GO) has been used in high-throughput omics research as a major bioinformatics resource. The hierarchical structure of GO provides users a convenient platform for biological information abstraction and hypothesis testing...

An Efficient Data Partitioning to Improve Classification Performance While Keeping Parameters Interpretable.

PloS one
Supervised machine learning methods typically require splitting data into multiple chunks for training, validating, and finally testing classifiers. For finding the best parameters of a classifier, training and validation are usually carried out with...

A Novel Flexible Inertia Weight Particle Swarm Optimization Algorithm.

PloS one
Particle swarm optimization (PSO) is an evolutionary computing method based on intelligent collective behavior of some animals. It is easy to implement and there are few parameters to adjust. The performance of PSO algorithm depends greatly on the ap...

BP Neural Network Could Help Improve Pre-miRNA Identification in Various Species.

BioMed research international
MicroRNAs (miRNAs) are a set of short (21-24 nt) noncoding RNAs that play significant regulatory roles in cells. In the past few years, research on miRNA-related problems has become a hot field of bioinformatics because of miRNAs' essential biologica...

Knowledge Discovery from Biomedical Ontologies in Cross Domains.

PloS one
In recent years, there is an increasing demand for sharing and integration of medical data in biomedical research. In order to improve a health care system, it is required to support the integration of data by facilitating semantic interoperability s...

The Markyt visualisation, prediction and benchmark platform for chemical and gene entity recognition at BioCreative/CHEMDNER challenge.

Database : the journal of biological databases and curation
Biomedical text mining methods and technologies have improved significantly in the last decade. Considerable efforts have been invested in understanding the main challenges of biomedical literature retrieval and extraction and proposing solutions to ...

The Apollo Structured Vocabulary: an OWL2 ontology of phenomena in infectious disease epidemiology and population biology for use in epidemic simulation.

Journal of biomedical semantics
BACKGROUND: We developed the Apollo Structured Vocabulary (Apollo-SV)-an OWL2 ontology of phenomena in infectious disease epidemiology and population biology-as part of a project whose goal is to increase the use of epidemic simulators in public heal...

Mining biomedical images towards valuable information retrieval in biomedical and life sciences.

Database : the journal of biological databases and curation
Biomedical images are helpful sources for the scientists and practitioners in drawing significant hypotheses, exemplifying approaches and describing experimental results in published biomedical literature. In last decades, there has been an enormous ...