Editorial: Implementation of genomic and epigenomic innovation in clinical cancer diagnostics by Laila C. Schenkel, Anahita Mohseni Meybodi, Shamini Selvarajah

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Computational modeling of chromatin accessibility identified important epigenomic regulators by Yanding Zhao, Yadong Dong, Wei Hong, Chongming Jiang, Kevin Yao, Chao Cheng

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Editorial: Plant Genome-Epigenome Integrity Under Environmental Stress by Paula Casati, Teresa Roldán-Arjona, Jean Molinier

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Predicting liver cancer on epigenomics data using machine learning by Vishalkumar Vekariya, Kalpdrum Passi, Chakresh Kumar Jain

Subjects: “…epigenomics…”
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An epigenome-wide association study of metabolic syndrome and its components by Marja-Liisa Nuotio, Natalia Pervjakova, Anni Joensuu, Ville Karhunen, Tero Hiekkalinna, Lili Milani, Johannes Kettunen, Marjo-Riitta Järvelin, Pekka Jousilahti, Andres Metspalu, Veikko Salomaa, Kati Kristiansson, Markus Perola

“…To accumulate knowledge of the pathological mechanisms behind the condition at the methylation level, we conducted an epigenome-wide association study (EWAS) of MetS and its components, testing 1187 individuals of European ancestry for approximately 470 000 methylation sites throughout the genome. …”
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A tool for rapid, automated characterization of population epigenomics in plants by Jack M. Colicchio, Cynthia L. Amstutz, Nelson Garcia, Keerthana N. Prabhu, Thomas M. Cairns, Melis Akman, Thomas Gottilla, Twyla Gollery, Shawn L. Stricklin, Travis S. Bayer

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An epigenome-wide association study of sex-specific chronological ageing by Daniel L. McCartney, Futao Zhang, Robert F. Hillary, Qian Zhang, Anna J. Stevenson, Rosie M. Walker, Mairead L. Bermingham, Thibaud Boutin, Stewart W. Morris, Archie Campbell, Alison D. Murray, Heather C. Whalley, David J. Porteous, Caroline Hayward, Kathryn L. Evans, Tamir Chandra, Ian J. Deary, Andrew M. McIntosh, Jian Yang, Peter M. Visscher, Allan F. McRae, Riccardo E. Marioni

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Precision cancer therapy is impacted by oncogene-dependent epigenome remodeling by Feng Liu, Paul S. Mischel, Webster K. Cavenee

“…Molecular dissection of the epigenome may identify oncogene-induced, actionable vulnerabilities, broadening the spectrum of precision oncology treatments.…”
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iSeg: an efficient algorithm for segmentation of genomic and epigenomic data by Senthil B. Girimurugan, Yuhang Liu, Pei-Yau Lung, Daniel L. Vera, Jonathan H. Dennis, Hank W. Bass, Jinfeng Zhang

“…Despite dozens of algorithms developed to address this problem in genomics research, methods with improved accuracy and speed are still needed to effectively tackle both existing and emerging genomic and epigenomic segmentation problems. Results We designed an efficient algorithm, called iSeg, for segmentation of genomic and epigenomic profiles. iSeg first utilizes dynamic programming to identify candidate segments and test for significance. …”
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The SEQC2 epigenomics quality control (EpiQC) study by 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, Paweł P. Łabaj, 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

“…By leveraging seven human cell lines that are designated as publicly available reference materials, these data can be used as a baseline to advance epigenomics research.…”
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Integrative analysis of genomic and epigenomic regulation of the transcriptome in liver cancer by Hyun Goo Woo, Ji-Hye Choi, Sarah Yoon, Byul A. Jee, Eun Ju Cho, Jeong-Hoon Lee, Su Jong Yu, Jung-Hwan Yoon, Nam-Joon Yi, Kwang-Woong Lee, Kyung-Suk Suh, Yoon Jun Kim

“…Hepatocellular carcinoma is known to harbour numerous genomic and epigenomic aberrations, driving transcriptomic deregulation. …”
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Unravelling the Epigenome of Myelodysplastic Syndrome: Diagnosis, Prognosis, and Response to Therapy by Danielle R. Bond, Heather J. Lee, Anoop K. Enjeti

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Pharmacological inhibition of EZH2 disrupts the female germline epigenome by Lexie Prokopuk, Kirsten Hogg, Patrick S. Western

“…Conclusion Together, these data demonstrate that drugs targeting EZH2 significantly affect the germline epigenome and, based on genetic models with oocyte-specific loss of EZH2 function, are likely to affect outcomes in offspring.…”
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Epigenome Defines Aberrant Brain Laterality in Major Mental Illnesses by Hamid Mostafavi Abdolmaleky, Shabnam Nohesara, Sam Thiagalingam

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Nutritional epigenomic and DNA-damage modulation effect of natural stilbenoids by Sara Volpes, Ilenia Cruciata, Federica Ceraulo, Chiara Schimmenti, Flores Naselli, Cecilia Pinna, Maurizio Mauro, Pasquale Picone, Sabrina Dallavalle, Domenico Nuzzo, Andrea Pinto, Fabio Caradonna

“…Stilbenoids were added in a Caco-2 cell culture as a model of the intestinal epithelial barrier and in the HepG-2 as a model of hepatic environment, to verify their dose-dependent toxicity, ability to interact with DNA, and epigenomic action. Resveratrol, pterostilbene, and (±)-trans-pterostilbene dehydrodimer were found to have no toxic effects at tested concentration and were effective in reversing arsenic damage in Caco-2 cell lines. (±)-trans-δ-viniferin showed epigenomic activity, but further studies are needed to clarify its mode of action.…”
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Potential of Melatonin as Adjuvant Therapy of Oral Cancer in the Era of Epigenomics by Ana Capote-Moreno, Eva Ramos, Javier Egea, Francisco López-Muñoz, Emilio Gil-Martín, Alejandro Romero

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Chromatin Network Analyses: Towards Structure-Function Relationships in Epigenomics by Vera Pancaldi, Vera Pancaldi

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Translation of genomics and epigenomics in prostate cancer: progress and promising directions by Wennuan Liu, Jianfeng Xu

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The Effects of Early Prenatal Alcohol Exposure on Epigenome and Embryonic Development by Essi Wallén, Pauliina Auvinen, Nina Kaminen-Ahola

“…This article will review the current knowledge about the in vivo and in vitro effects of alcohol exposure on the epigenome, gene regulation, and the phenotype during the first weeks of pregnancy.…”
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Transcriptomic and epigenomic effects of insoluble particles on J774 macrophages by T. Emi, L. M. Rivera, V. C. Tripathi, N. Yano, A. Ragavendran, J. Wallace, Alexey V. Fedulov

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