Dataset Information

GenomeForest: An Ensemble Machine Learning Classifier for Endometriosis.

ABSTRACT: Endometriosis is a complex and high impact disease affecting 176 million women worldwide with diagnostic latency between 4 to 11 years due to lack of a definitive clinical symptom or a minimally invasive diagnostic method. In this study, we developed a new ensemble machine learning classifier based on chromosomal partitioning, named GenomeForest and applied it in classifying the endometriosis vs. the control patients using 38 RNA-seq and 80 enrichment-based DNA-methylation (MBD-seq) datasets, and computed performance assessment with six different experiments. The ensemble machine learning models provided an avenue for identifying several candidate biomarker genes with a very high F1 score; a near perfect F1 score (0.968) for the transcriptomics dataset and a very high F1 score (0.918) for the methylomics dataset. We hope in the future a less invasive biopsy can be used to diagnose endometriosis using the findings from such ensemble machine learning classifiers, as demonstrated in this study.

SUBMITTER: Akter S

PROVIDER: S-EPMC7233069 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature

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Publications

GenomeForest: An Ensemble Machine Learning Classifier for Endometriosis.

Akter Sadia S Xu Dong D Nagel Susan C SC Bromfield John J JJ Pelch Katherine E KE Wilshire Gilbert B GB Joshi Trupti T

AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science 20200530

Endometriosis is a complex and high impact disease affecting 176 million women worldwide with diagnostic latency between 4 to 11 years due to lack of a definitive clinical symptom or a minimally invasive diagnostic method. In this study, we developed a new ensemble machine learning classifier based on chromosomal partitioning, named GenomeForest and applied it in classifying the endometriosis vs. the control patients using 38 RNA-seq and 80 enrichment-based DNA-methylation (MBD-seq) datasets, an ...[more]

PMID: 32477621

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Dataset Information

GenomeForest: An Ensemble Machine Learning Classifier for Endometriosis.

Publications

GenomeForest: An Ensemble Machine Learning Classifier for Endometriosis.

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