AIMC Topic: DNA Methylation

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Machine learning-based radiomic, clinical and semantic feature analysis for predicting overall survival and MGMT promoter methylation status in patients with glioblastoma.

Magnetic resonance imaging Sep 25, 2020
INTRODUCTION: Survival varies in patients with glioblastoma due to intratumoral heterogeneity and radiomics/imaging biomarkers have potential to demonstrate heterogeneity. The objective was to combine radiomic, semantic and clinical features to impro...
Machine Learning Retrospective Studies Female Aged Adult Humans DNA Methylation Glioblastoma Survival Analysis DNA Modification Methylases DNA Repair Enzymes Brain Neoplasms Male Middle Aged Image Processing, Computer-Assisted Magnetic Resonance Imaging Tumor Suppressor Proteins Semantics Promoter Regions, Genetic
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Automatic Prediction of MGMT Status in Glioblastoma via Deep Learning-Based MR Image Analysis.

BioMed research international Sep 23, 2020
Methylation of the O-methylguanine methyltransferase (MGMT) gene promoter is correlated with the effectiveness of the current standard of care in glioblastoma patients. In this study, a deep learning pipeline is designed for automatic prediction of M...
DNA Modification Methylases DNA Repair Enzymes Tumor Suppressor Proteins Promoter Regions, Genetic Imaging Genomics ROC Curve Humans Brain Magnetic Resonance Imaging Brain Neoplasms DNA Methylation Deep Learning Glioblastoma Image Interpretation, Computer-Assisted
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Machine Learning-Based DNA Methylation Score for Fetal Exposure to Maternal Smoking: Development and Validation in Samples Collected from Adolescents and Adults.

Environmental health perspectives Sep 15, 2020
BACKGROUND: Fetal exposure to maternal smoking during pregnancy is associated with the development of noncommunicable diseases in the offspring. Maternal smoking may induce such long-term effects through persistent changes in the DNA methylome, which...
Prenatal Exposure Delayed Effects Maternal Exposure Finland Male Adolescent DNA Methylation Smoking Humans Machine Learning Biomarkers Pregnancy Female Adult
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Computational methods and next-generation sequencing approaches to analyze epigenetics data: Profiling of methods and applications.

Methods (San Diego, Calif.) Sep 14, 2020
Epigenetics is mainly comprised of features that regulate genomic interactions thereby playing a crucial role in a vast array of biological processes. Epigenetic mechanisms such as DNA methylation and histone modifications influence gene expression b...
Epigenomics DNA Methylation High-Throughput Nucleotide Sequencing Histone Code Machine Learning Humans Data Analysis Animals Mice Epigenesis, Genetic
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Accurate prediction of DNA N-methylcytosine sites via boost-learning various types of sequence features.

BMC genomics Sep 11, 2020
BACKGROUND: DNA N4-methylcytosine (4mC) is a critical epigenetic modification and has various roles in the restriction-modification system. Due to the high cost of experimental laboratory detection, computational methods using sequence characteristic...
Machine Learning Software Epigenome Drosophila melanogaster Caenorhabditis elegans Arabidopsis Cytosine Animals Escherichia coli Sequence Analysis, DNA DNA Methylation DNA
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A Linear Regression and Deep Learning Approach for Detecting Reliable Genetic Alterations in Cancer Using DNA Methylation and Gene Expression Data.

Genes Aug 12, 2020
DNA methylation change has been useful for cancer biomarker discovery, classification, and potential treatment development. So far, existing methods use either differentially methylated CpG sites or combined CpG sites, namely differentially methylate...
Computational Biology Epigenesis, Genetic Gene Expression Regulation, Neoplastic Databases, Genetic DNA Methylation Genetic Variation Linear Models Biomarkers, Tumor Gene Ontology Humans Neoplasms Algorithms Gene Expression Profiling Deep Learning ROC Curve
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Integrating multi-omics data by learning modality invariant representations for improved prediction of overall survival of cancer.

Methods (San Diego, Calif.) Aug 5, 2020
Breast and ovarian cancers are the second and the fifth leading causes of cancer death among women. Predicting the overall survival of breast and ovarian cancer patients can facilitate the therapeutics evaluation and treatment decision making. Multi-...
Ovarian Neoplasms Computational Biology Gene Expression Regulation, Neoplastic Epigenomics DNA Methylation DNA Copy Number Variations Machine Learning Female Breast Neoplasms Genomics Humans Neural Networks, Computer
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Classifying Breast Cancer Subtypes Using Deep Neural Networks Based on Multi-Omics Data.

Genes Aug 4, 2020
With the high prevalence of breast cancer, it is urgent to find out the intrinsic difference between various subtypes, so as to infer the underlying mechanisms. Given the available multi-omics data, their proper integration can improve the accuracy o...
DNA Methylation DNA Copy Number Variations Mutation Humans Neural Networks, Computer Software Female Breast Neoplasms Transcriptome Gene Regulatory Networks Genomics
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Evaluation of marker selection methods and statistical models for chronological age prediction based on DNA methylation.

Legal medicine (Tokyo, Japan) Jul 1, 2020
In forensic investigation, retrieving biological information from DNA evidence is a promising field of interest. One of the applications is on the estimation of the age of the donor based on DNA methylation. A large number of studies focused on age p...
Aged, 80 and over Young Adult Adult Male Aging Middle Aged Sequence Analysis, DNA DNA Methylation Models, Statistical Linear Models Machine Learning Algorithms Forecasting Female Aged Humans CpG Islands Forensic Genetics
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Applications of radiomics and machine learning for radiotherapy of malignant brain tumors.

Strahlentherapie und Onkologie : Organ der Deutschen Rontgengesellschaft ... [et al] May 11, 2020
BACKGROUND: Magnetic resonance imaging (MRI) and amino acid positron-emission tomography (PET) of the brain contain a vast amount of structural and functional information that can be analyzed by machine learning algorithms and radiomics for the use o...
Promoter Regions, Genetic Isocitrate Dehydrogenase DNA Methylation Imaging Genomics Diagnosis, Differential Neoplasm Proteins Glioblastoma Radiation Oncology Humans Image Processing, Computer-Assisted Computational Biology Sensitivity and Specificity Glioma Brain Neoplasms DNA Modification Methylases Magnetic Resonance Imaging Deep Learning Neoplasm Grading DNA Repair Enzymes Neoplasm Recurrence, Local Tumor Suppressor Proteins Progression-Free Survival Neuroimaging Positron-Emission Tomography Radiosurgery Radiotherapy Planning, Computer-Assisted
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