AIMC Topic: DNA Methylation
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Analyzing DNA methylation patterns in subjects diagnosed with schizophrenia using machine learning methods.
Journal of psychiatric research
Apr 2, 2019
Schizophrenia is a common mental disorder with high heritability. It is genetically complex and to date more than a hundred risk loci have been identified. Association of environmental factors and schizophrenia has also been reported, while epigeneti...
Group Lasso Regularized Deep Learning for Cancer Prognosis from Multi-Omics and Clinical Features.
Genes
Mar 21, 2019
Accurate prognosis of patients with cancer is important for the stratification of patients, the optimization of treatment strategies, and the design of clinical trials. Both clinical features and molecular data can be used for this purpose, for insta...
Classifying Breast Cancer Subtypes Using Multiple Kernel Learning Based on Omics Data.
Genes
Mar 7, 2019
It is very significant to explore the intrinsic differences in breast cancer subtypes. These intrinsic differences are closely related to clinical diagnosis and designation of treatment plans. With the accumulation of biological and medicine datasets...
Predicting overall survival of patients with hepatocellular carcinoma using a three-category method based on DNA methylation and machine learning.
Journal of cellular and molecular medicine
Feb 19, 2019
Hepatocellular carcinoma (HCC) is closely associated with abnormal DNA methylation. In this study, we analyzed 450K methylation chip data from 377 HCC samples and 50 adjacent normal samples in the TCGA database. We screened 47,099 differentially meth...
Molecular and epigenetic profiles of BRCA1-like hormone-receptor-positive breast tumors identified with development and application of a copy-number-based classifier.
Breast cancer research : BCR
Jan 25, 2019
BACKGROUND: BRCA1-mutated cancers exhibit deficient homologous recombination (HR) DNA repair, resulting in extensive copy number alterations and genome instability. HR deficiency can also arise in tumors without a BRCA1 mutation. Compared with other ...
Manganese oxide nanoparticles induce genotoxicity and DNA hypomethylation in the moss Physcomitrella patens.
Mutation research. Genetic toxicology and environmental mutagenesis
Dec 18, 2018
The genotoxicity of nanoparticles is a major concern for nano-safety appraisal in the bryophytes as they are the primary colonizers of bare land, indicators of atmospheric pollution and excellent accumulators of trace metals. The present study for th...
LogLoss-BERAF: An ensemble-based machine learning model for constructing highly accurate diagnostic sets of methylation sites accounting for heterogeneity in prostate cancer.
PloS one
Nov 2, 2018
Although modern methods of whole genome DNA methylation analysis have a wide range of applications, they are not suitable for clinical diagnostics due to their high cost and complexity and due to the large amount of sample DNA required for the analys...
Data mining and machine learning approaches for the integration of genome-wide association and methylation data: methodology and main conclusions from GAW20.
BMC genetics
Sep 17, 2018
BACKGROUND: Multiple layers of genetic and epigenetic variability are being simultaneously explored in an increasing number of health studies. We summarize here different approaches applied in the Data Mining and Machine Learning group at the GAW20 t...
Using recursive feature elimination in random forest to account for correlated variables in high dimensional data.
BMC genetics
Sep 17, 2018
BACKGROUND: Random forest (RF) is a machine-learning method that generally works well with high-dimensional problems and allows for nonlinear relationships between predictors; however, the presence of correlated predictors has been shown to impact it...
Epigenetic machine learning: utilizing DNA methylation patterns to predict spastic cerebral palsy.
BMC bioinformatics
Jun 21, 2018
BACKGROUND: Spastic cerebral palsy (CP) is a leading cause of physical disability. Most people with spastic CP are born with it, but early diagnosis is challenging, and no current biomarker platform readily identifies affected individuals. The aim of...
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