Article
Geriatrics & Gerontology
Fedor Galkin, Polina Mamoshina, Kirill Kochetov, Denis Sidorenko, Alex Zhavoronkov
Summary: DNA methylation aging clocks have become an invaluable tool in biogerontology research, with deep learning showing promise as an accurate method for predicting age. The newly presented DeepMAge clock demonstrates biological relevance by assigning higher predicted age to individuals with certain health-related conditions.
Article
Biochemical Research Methods
Pegah Mavaie, Lawrence Holder, Daniel Beck, Michael K. Skinner
Summary: This study introduced a hybrid DL-ML approach to predict environmentally responsive transgenerational differential DNA methylated regions using deep neural network for feature extraction and a non-DL classifier. The experimental results showed that this approach outperforms traditional deep learning and machine learning methods.
BMC BIOINFORMATICS
(2021)
Review
Genetics & Heredity
Damon Broyles, Robert Philibert
Summary: Coronary heart disease is the leading cause of death worldwide, and better methods for diagnosing and monitoring the disease are needed. Current diagnostic methods face barriers of implementation, especially in rural areas and lower-income countries. However, advancements in DNA methylation testing methods and artificial intelligence show promise in bridging this gap and improving the assessment of coronary heart disease.
Article
Oncology
Vijayachitra Modhukur, Shakshi Sharma, Mainak Mondal, Ankita Lawarde, Keiu Kask, Rajesh Sharma, Andres Salumets
Summary: Cancer metastasis is a significant cause of cancer deaths, with DNA methylation changes playing a key role in cancer prediction. Machine learning techniques show great promise in cancer classification.
Article
Biology
Alena Kalyakulina, Igor Yusipov, Maria Giulia Bacalini, Claudio Franceschi, Maria Vedunova, Mikhail Ivanchenko
Summary: The study proposes a comprehensive approach for classifying controls and patients using combined DNA methylation datasets. The proposed method includes data harmonization, machine learning classification model construction, dimensionality reduction, imputation of missing values, and explanation of model predictions. The results show that harmonization improves classification accuracy, tree ensembles achieve the best accuracy, dimensionality reduction does not affect accuracy, and the best imputation methods perform as well as the original data.
Article
Oncology
Ray Bahado-Singh, Kyriacos T. Vlachos, Buket Aydas, Juozas Gordevicius, Uppala Radhakrishna, Sangeetha Vishweswaraiah
Summary: In this study, AI and DNA methylation analysis were combined to identify potential biomarkers for lung cancer and elucidate its pathogenesis. The results showed that AI achieved high accuracy in lung cancer detection, and the methylation of genes was found to be associated with tumor biology.
FRONTIERS IN ONCOLOGY
(2022)
Article
Psychiatry
Oluwagbenga Dada, Christopher Adanty, Nasia Dai, Richie Jeremian, Sauliha Alli, Philip Gerretsen, Ariel Graff, John Strauss, Vincenzo De Luca
Summary: The study found evidence of epigenetic age acceleration associated with psychosis severity in individuals with schizophrenia, using two different algorithms for DNAm age analysis.
PSYCHIATRY RESEARCH
(2021)
Article
Cell Biology
Ray O. Bahado-Singh, Uppala Radhakrishna, Juozas Gordevicius, Buket Aydas, Ali Yilmaz, Faryal Jafar, Khaled Imam, Michael Maddens, Kshetra Challapalli, Raghu P. Metpally, Wade H. Berrettini, Richard C. Crist, Stewart F. Graham, Sangeetha Vishweswaraiah
Summary: This study utilized circulating cell-free DNA (cfDNA) to analyze DNA methylation and discovered numerous epigenetically altered genes in Alzheimer's disease (AD) patients, which were consistent with previously reported differentially expressed genes in the brain. High predictive accuracy was achieved in diagnosing AD using artificial intelligence algorithms. Furthermore, enrichment analysis shed light on the pathogenesis of AD.
Article
Immunology
Krisann K. Oursler, Vincent C. Marconi, Zeyuan Wang, Ke Xu, Monty Montano, Kaku So-Armah, Amy C. Justice, Yan Sun
Summary: The associations between epigenetic age acceleration markers and physiologic frailty and mortality in people with HIV provide insight into accelerated aging and support the development of interventions for preventing and treating age-related diseases in this population.
CLINICAL INFECTIOUS DISEASES
(2023)
Review
Pharmacology & Pharmacy
Satbir Kour, Indrani Biswas, Sumit Sheoran, Swati Arora, Prasanna Sheela, Santosh Kumari Duppala, Dwarkanath K. Murthy, Smita C. Pawar, Himanshu Singh, Deepak Kumar, Dhamodharan Prabhu, Sugunakar Vuree, Raj Kumar
Summary: Cancer epigenetics has gained attention for its reversible nature and role in cervical tumorigenesis. Synthetic inhibitors targeting DNA methylation and chromatin modification have limitations, leading to the evaluation of bioactive phytochemicals. These phytochemicals have shown potential in altering gene expression but targeted delivery is lacking. Nano-encapsulated drugs and computational pharmaceutics employing AI and nanotechnology may offer solutions in personalized healthcare.
JOURNAL OF DRUG DELIVERY SCIENCE AND TECHNOLOGY
(2023)
Article
Psychology, Clinical
Anthony S. Zannas, Sarah D. Linnstaedt, Xinming An, Jennifer S. Stevens, Nathaniel G. Harnett, Alyssa R. Roeckner, Katelyn I. Oliver, David R. Rubinow, Elisabeth B. Binder, Karestan C. Koenen, Kerry J. Ressler, Samuel A. McLean
Summary: Psychological trauma exposure and PTSD are associated with advanced epigenetic age. This study found that epigenetic age measured at the time of trauma may predict the subsequent development of PTSD. The neural substrates underlying posttraumatic outcomes associated with epigenetic aging are unclear.
PSYCHOLOGICAL MEDICINE
(2023)
Article
Cell Biology
Xian Xia, Yiyang Wang, Zhengqing Yu, Jiawei Chen, Jing-Dong J. Han
Summary: Healthy aging is the main goal of aging research and interventions, which can be quantified by biological aging rates estimated by aging clocks. Recent human aging clocks are rapidly developing, and the use of multiscale and longitudinal data will further advance the development of these clocks.
AGEING RESEARCH REVIEWS
(2021)
Article
Chemistry, Multidisciplinary
Milan Kumar Jena, Biswarup Pathak
Summary: This article proposes a method of developing an artificially intelligent (AI) nanopore by combining supervised machine learning (ML) and transverse quantum transport technology with a graphene nanopore. The optimized ML model can predict the transmission function of other nucleotides, with a low root-mean-square error (RMSE) of 0.062. Furthermore, the accuracy of classifying unlabeled nucleotides based on their transmission readouts reaches up to 96.01%. The AI nanopore is expected to alleviate the experimental challenges of the quantum-tunneling method and enable rapid and high-precision DNA sequencing by predicting their signature transmission functions.
Article
Genetics & Heredity
Man Li, Litao Bao, Ping Zhu, Shuxia Wang
Summary: This study investigated the impact of metformin on the epigenetic age in subjects with type 2 diabetes mellitus (DM). The results showed an association between metformin intake and slower epigenetic aging.
FRONTIERS IN GENETICS
(2022)
Article
Cell Biology
Valerio Caputo, Domenica Megalizzi, Carlo Fabrizio, Andrea Termine, Luca Colantoni, Cristina Bax, Juliette Gimenez, Mauro Monforte, Giorgio Tasca, Enzo Ricci, Carlo Caltagirone, Emiliano Giardina, Raffaella Cascella, Claudia Strafella
Summary: The study presents a protocol for methylation analysis combined with Machine Learning algorithms to classify patients with Facio-Scapulo-Humeral Dystrophy (FSHD). The results show significantly reduced methylation levels in FSHD patients compared to healthy controls. A Machine Learning model was developed to accurately classify FSHD patients, providing further evidence of DNA methylation as a powerful disease biomarker.
Review
Biochemistry & Molecular Biology
Karthikeyan Vijayakumar, Goang-Won Cho
CELL BIOCHEMISTRY AND FUNCTION
(2019)
Review
Genetics & Heredity
Nagarajan Maharajan, Karthikeyan Vijayakumar, Chul Ho Jang, Goang-Won Cho
JOURNAL OF MOLECULAR MEDICINE-JMM
(2020)
Article
Medicine, General & Internal
Gwang-Won Cho, Changjong Moon, Anji Song, Karthikeyan A. Vijayakumar, Mary Jasmin Ang, Chul Ho Jang
Summary: This study investigated the use of ADM/MSCs combined with growth factors in chronic tympanic membrane transplantation and found that the success rate was significantly higher in the ADM/MSC/EGF group, suggesting that this combination could potentially be used as an outpatient treatment for eardrum regeneration in the future, without the need for surgery.
JOURNAL OF CLINICAL MEDICINE
(2021)
Article
Biochemistry & Molecular Biology
Anji Song, Gwang-Won Cho, Karthikeyan A. Vijayakumar, Changjong Moon, Mary Jasmin Ang, Jahae Kim, Ilyong Park, Chul Ho Jang
Summary: This study investigated the therapeutic effects of valproic acid (VPA) in a salicylate-induced tinnitus model. The results showed that pretreatment with VPA before salicylate treatment can attenuate the increased levels of NMDA receptor, intracellular reactive oxygen species (ROS), and apoptosis-related markers induced by salicylate. These findings provide evidence for the beneficial effects of VPA in the treatment of salicylate-induced temporary hearing loss and tinnitus.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Sin-Gu Jeong, Takbum Ohn, Chul Ho Jang, Karthikeyan Vijayakumar, Gwang-Won Cho
MOLECULES AND CELLS
(2020)