Article
Oncology
Chiara Herzog, Fatima Marin, Allison Jones, Iona Evans, Daniel Reisel, Elisa Redl, Lena Schreiberhuber, Sonia Paytubi, Beatriz Pelegrina, Alvaro Carmona, Paula Peremiquel-Trillas, Jon Frias-Gomez, Marta Pineda, Joan Brunet, Jordi Ponce, Xavier Matias-Guiu, Silvia de Sanjose, Laia Alemany, Adeola Olaitan, Michael Wong, Davor Jurkovic, Emma J. Crosbie, Adam N. Rosenthal, Line Bjorge, Michal Zikan, Lukas Dostalek, David Cibula, Karin Sundstrom, Joakim Dillner, Laura Costas, Martin Widschwendter
Summary: The study developed a noninvasive triage test for women with suspected endometrial cancer symptoms, aiming to improve early diagnosis and reduce the need for in-person visits. The test showed high sensitivity and specificity in detecting EC cases in different sample types and settings.
JOURNAL OF CLINICAL ONCOLOGY
(2022)
Article
Clinical Neurology
Qin Ma, Jorge R. Oksenberg, Alessandro Didonna
Summary: This study found that ATXN1 undergoes hypo-methylation at four distinct regions exclusively in B cells of multiple sclerosis patients, and these differentially methylated sites overlap with other regulatory epigenetic marks and MS risk variants. Luciferase assays showed that the loss of methylation leads to an increase in ATXN1 expression. The findings provide insights into ataxin-1 regulation in the immune system and the molecular mechanisms underlying MS risk.
ANNALS OF CLINICAL AND TRANSLATIONAL NEUROLOGY
(2022)
Article
Biology
Jiahui Si, Songchun Yang, Dianjianyi Sun, Canqing Yu, Yu Guo, Yifei Lin, Iona Y. Millwood, Robin G. Walters, Ling Yang, Yiping Chen, Huaidong Du, Yujie Hua, Jingchao Liu, Junshi Chen, Zhengming Chen, Wei Chen, Jun Lv, Liming Liang, Liming Li
Summary: This study conducted the first prospective epigenome-wide analysis of DNA methylation in relation to incident coronary heart disease (CHD) in the Asian population, identifying novel blood methylation alterations associated with CHD and providing evidence of the role of epigenetic regulations in smoking- and blood pressure-related pathways to CHD risk.
Article
Immunology
Man Ni, Yuting Chen, Xiaoya Sun, Yujie Deng, Xinqi Wang, Tao Zhang, Ye Wu, Lingxiang Yu, Shenqian Xu, Haiyang Yu, Zongwen Shuai, Faming Pan
Summary: The methylation patterns of IRF5 promoter are associated with susceptibility to AS, and may play a role in the pathological process and identification of AS patients.
INTERNATIONAL IMMUNOPHARMACOLOGY
(2022)
Article
Oncology
Matthias Millesi, Alice Senta Ryba, Johannes A. Hainfellner, Thomas Roetzer, Anna Sophie Berghoff, Matthias Preusser, Gerwin Heller, Erwin Tomasich, Felix Sahm, Karl Roessler, Stefan Wolfsberger
Summary: This study aimed to investigate DNA methylation profiles in WHO grade II meningiomas to understand their different clinical courses. The study found that DNA methylation profiles can distinguish between dismal clinical courses and benign clinical courses, and are associated with the Wnt and related signaling pathways. DNA methylation profiles may have the potential to support prognostic considerations regarding meningioma recurrence and radiotherapeutic treatment allocation after surgical resection.
FRONTIERS IN ONCOLOGY
(2022)
Article
Clinical Neurology
Yuwen Cao, Wotu Tian, Jingying Wu, Xingwang Song, Li Cao, Xinghua Luan
Summary: In this study, the methylation status of the NOTCH2NLC promoter was analyzed in NIID patients and healthy controls. The results showed that the methylation levels of GGC repeats and adjacent CpG islands were higher in the NIID patients. Furthermore, correlations between methylation levels and disease features were explored for the first time, providing new insights into the pathogenic mechanism of NIID.
JOURNAL OF NEUROLOGY
(2022)
Article
Environmental Sciences
Lili Xiao, Gaohui Zan, Xiuming Feng, Yu Bao, Sifang Huang, Xiaoyu Luo, Xia Xu, Zhiyong Zhang, Xiaobo Yang
Summary: This study revealed associations between multiple metals exposure and accelerated aging in the elderly, with vanadium, zinc, and arsenic identified as major contributors. The individual effects of different metals on DNA methylation age showed a reverse U-shaped relationship.
ENVIRONMENTAL POLLUTION
(2021)
Article
Biology
J. Feifel, D. Dobler
Summary: Nested case-control designs are attractive in studies with rare events or expensive covariates due to their restriction to small subsets of all patients at risk prior to observed events, allowing for more powerful and flexible non-standard sampling designs. By exploiting the martingale structure, simultaneous confidence bands based on wild bootstrap resampling procedures can be found within this general class of designs, as demonstrated in a simulation study with intended coverage probability obtained for cumulative baseline hazard functions. These methods have been applied to observational data on hospital-acquired infections.
Article
Biotechnology & Applied Microbiology
Jonathan Foox, Jessica Nordlund, Claudia Lalancette, Ting Gong, Michelle Lacey, Samantha Lent, Bradley W. Langhorst, V. K. Chaithanya Ponnaluri, Louise Williams, Karthik Ramaswamy Padmanabhan, Raymond Cavalcante, Anders Lundmark, Daniel Butler, Christopher Mozsary, Justin Gurvitch, John M. Greally, Masako Suzuki, Mark Menor, Masaki Nasu, Alicia Alonso, Caroline Sheridan, Andreas Scherer, Stephen Bruinsma, Gosia Golda, Agata Muszynska, Pawel P. Labaj, Matthew A. Campbell, Frank Wos, Amanda Raine, Ulrika Liljedahl, Tomas Axelsson, Charles Wang, Zhong Chen, Zhaowei Yang, Jing Li, Xiaopeng Yang, Hongwei Wang, Ari Melnick, Shang Guo, Alexander Blume, Vedran Franke, Inmaculada Ibanez de Caceres, Carlos Rodriguez-Antolin, Rocio Rosas, Justin Wade Davis, Jennifer Ishii, Dalila B. Megherbi, Wenming Xiao, Will Liao, Joshua Xu, Huixiao Hong, Baitang Ning, Weida Tong, Altuna Akalin, Yunliang Wang, Youping Deng, Christopher E. Mason
Summary: The study presents a multi-platform assessment and cross-validated resource for epigenetics research, showing overall high concordance between assays but also some differences. The data provided can guide the use of DNA reference materials in epigenomics research and offer best practices for future studies.
Article
Multidisciplinary Sciences
Shuai Liu, Yang Li, Xian Wei, Dilare Adi, Yong-Tao Wang, Min Han, Fen Liu, Bang-Dang Chen, Xiao-Mei Li, Yi-Ning Yang, Zhen-Yan Fu, Yi-Tong Ma
Summary: This study revealed that DNA methylation of the GRINA gene increases the risk of dyslipidemia in humans.
Article
Medical Laboratory Technology
Liya Zhu, Chao Zhu, Jialie Jin, Jinxin Wang, Xiaojing Zhao, Rongxi Yang
Summary: This study found an association between blood-based ITGB2 methylation and coronary heart disease (CHD), with hypomethylation of ITGB2 being a risk factor for CHD. Additionally, the combination of ITGB2 methylation and conventional CHD risk factors could efficiently discriminate CHD patients from controls.
CLINICA CHIMICA ACTA
(2024)
Article
Oncology
Chiara Herzog, Allison Jones, Iona Evans, Daniel Reisel, Adeola Olaitan, Konstantinos Doufekas, Nicola Macdonald, Angelique Floeter Radestad, Kristina Gemzell-Danielsson, Michal Zikan, David Cibula, Lukas Dostalek, Tobias Paprotka, Andreas Leimbach, Markus Schmitt, Andy Ryan, Aleksandra Gentry-Maharaj, Sophia Apostolidou, Adam N. Rosenthal, Usha Menon, Martin Widschwendter
Summary: Analysis of cell-free DNA methylation (cfDNAme) can aid in the early detection of ovarian cancers and potentially reduce mortality. Combining cfDNAme with CA125 can improve sensitivity for high-risk cancers. Despite technical limitations, ovarian cancer can be detected in samples taken within 1 year before diagnosis.
INTERNATIONAL JOURNAL OF CANCER
(2023)
Article
Computer Science, Interdisciplinary Applications
Nicholas Rios, Peter Winker, Dennis K. J. Lin
Summary: In a mixture experiment, the addition order of components has been given little attention, despite its influence on the response along with the mixture proportions. This study focuses on Order-of-Addition (OofA) Mixture experiments, aiming to identify the optimal addition order and mixture proportions. Methodologies for constructing full OofA Mixture designs are discussed, and a Threshold Accepting (TA) algorithm is utilized to reduce the number of required runs. Additionally, neighborhood structures for OofA simplex lattice and general mixture designs are proposed and compared with the well-known Fedorov algorithm.
COMPUTATIONAL STATISTICS & DATA ANALYSIS
(2022)
Review
Oncology
Yuyuan Gu, Wencai Zhang, Xianmin Wu, Yuanwei Zhang, Ke Xu, Jiacan Su
Summary: Despite advances in organoid generation, stable protocols remain a challenge. Evaluation of organoids is important for accurately mimicking human tissue, requiring high-throughput strategies and deciphering cellular interactions. Multi-omics and single-cell analysis can uncover cellular mechanisms and structures. This review summarizes novel approaches to studying organoid mechanisms and heterogeneity, and discusses their similarity to human tissue.
CLINICAL AND TRANSLATIONAL MEDICINE
(2023)
Article
Biochemistry & Molecular Biology
Giovanni Delli Carpini, Luca Giannella, Jacopo Di Giuseppe, Nina Montik, Michele Montanari, Mariasole Fichera, Daniele Crescenzi, Carolina Marzocchini, Maria Liberata Meccariello, Donato Di Biase, Arianna Vignini, Andrea Ciavattini
Summary: This study suggests that the MTHFR C677T homozygous polymorphism may be a risk factor for endometriosis, potentially explaining the association through altered DNA methylation and reduced activity of antioxidant systems.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)