Epigenetic Biomarkers and Diagnostics comprises 31 chapters contributed by leading active researchers in basic and clinical epigenetics. The book begins with the basis of epigenetic mechanisms and descriptions of epigenetic biomarkers that can be used in clinical diagnostics and prognostics. It goes on to discuss classical methods and next generation sequencing-based technologies to discover and analyze epigenetic biomarkers. The book concludes with an account of DNA methylation, post-translational modifications and noncoding RNAs as the most promising biomarkers for cancer (i.e. breast, lung, colon, etc.), metabolic disorders (i.e. diabetes and obesity), autoimmune diseases, infertility, allergy, infectious diseases, and neurological disorders.
The book describes the challenging aspects of research in epigenetics, and current findings regarding new epigenetic elements and modifiers, providing guidance for researchers interested in the most advanced technologies and tested biomarkers to be used in the clinical diagnosis or prognosis of disease.
Preface José Luis García-Giménez 1. Epigenetic Biomarkers: New findings, perspectives, and future directions in diagnostics José Luis García-Giménez, Toshikazu Ushijima, and Trygve O. Tollefsbol 2. The importance of Biobanks in epigenetic studies Lorena Peiró-Chova, Olga Bahamonde Ponce, Carolina Abril-Tormo, Jacobo Martínez-Santamaría, José Antonio López-Guerrero and Peter H.J. Riegman 3. Epigenetic Mechanisms as Key Regulators in Disease. Clinical Implications Abdelhalim Boukaba, José Luis García-Giménez 4. The evolution of new technologies and methods in clinical epigenetics research Tandy L. Dolin Petrov and Nicole C. Riddle 5. Biomarkers and methodologies for monitoring epigenetic drug effects in cancer Marianne B. Treppendahl, Lasse Sommer Kristensen and Kirsten Grønbæk 6. Genome-wide techniques for the study of clinical epigenetic biomarkers Eneda Toska and F Javier Carmona Sanz 7. Sequenom MassARRAY technology for the analysis of DNA methylation. Clinical applications Enrique J. Buso and Marisa Iborra 8. The role of Methylation-specific PCR and associated techniques in clinical diagnostics Fang Zhao and Bharati Bapat 9. Pyrosequencing and its application in epigenetic clinical diagnostics Ana-Maria Florea 10. Mass spectrometry for the identification of post-translational modifications in histones and its application in clinical epigenetics Roberta Noberini, Alessandro Cuomo and Tiziana Bonaldi 11. High-throughput analysis of non-coding RNAs: implications in clinical epigenetics Valerio Costa, Maria R Matarazzo, Miriam Gagliardi, Roberta Esposito, Alfredo Ciccodicola 12. Circulating non-coding RNAs as clinical biomarkers Francesco Russo, Flavia Scoyni, Alessandro Fatica, Marco Pellegrini, Alfredo Ferro, Alfredo Pulvirenti and Rosalba Giugno 13. DNA methylation biomarkers in lung cancer Juan Sandoval and Paula Lopez Serra 14. DNA methylation alterations as biomarkers for Prostate Cancer João Ramalho-Carvalho, Rui Henrique, Carmen Jerónimo 15. DNA methylation in breast cancer Raimundo Cervera, Alberto Ramos, Ana Lluch and Joan Climent 16. DNA methylation in obesity and associated diseases Ana B Crujeiras and Angel Díaz-Lagares 17. DNA Methylation Biomarkers in Asthma and Allergy Avery DeVries and Donata Vercelli 18. DNA Methylation in Pregnancy Complications Deepali Sundrani, Vinita Khot and Sadhana Joshi 19. Epigenetics in Infectious Diseases Genevieve Syn, Jenefer M. Blackwell and Sarra E. Jamieson 20. DNA Methylation in Neurodegenerative Diseases Sahar Al-Mahdawi, Sara Anjomani Virmouni and Mark A. Pook 21. The histone code and disease: post-translational modifications as potential prognostic factors for clinical diagnosis Nicolas G. Simonet, George Rasti and Alejandro Vaquero 22. Histone Post-Translational Modifications and Chromatin Remodelers in Prostate Cancer Filipa Quintela Vieira, Diogo Almeida-Rios, Inês Graça, Rui Henrique and Carmen Jerónimo 23. Histone post-translational modifications in breast cancer and their use in clinical diagnosis and prognosis Luca Magnani, Annita Louloupi and Wilbert Zwart 24. Histone variants and post-translational modifications in spermatogenesis and infertility Juan Ausio, Yinan Zhang and Toyotaka Ishibashi 25. Circulating histones and nucleosomes as biomarkers in sepsis and septic shock José Luis García Giménez, Carlos Romá Mateo, Marta Seco Cervera, José Santiago Ibañez Cabellos and Federico V. Pallardó 26. Chromatin landscape and epigenetic signatures in neurological disorders: emerging perspectives for biological and clinical research Pamela Milani and Ernest Fraenkel 27. MicroRNAs deregulation in lung cancer and their use as clinical tools Paula Lopez-Serra and Juan Sandoval 28. Circulating Nucleic Acids as Prostate Cancer Biomarkers Claire E. Fletcher, Ailsa Sita-Lumsden, Akifumi Shibakawa and Charlotte L. Bevan 29. microRNAs in breast cancer and their value as biomarkers Olafur Andri Stefansson 30. microRNAs in bone and soft tissue sarcomas and their value as biomarkers Tomohiro Fujiwara, Yu Fujita, Yutaka Nezu, Akira Kawai, Toshifumi Ozaki, Takahiro Ochiya 31. miRNAs in the pathophysiology of diabetes and their value as biomarkers Eoin Brennan, Aaron McClelland, Shinji Hagiwara, Catherine Godson and Phillip Kantharidis
Dr. Garcia-Gimenez is a Senior Researcher at the Consortium Center for Biomedical Network Research, the Spanish Institute of Health Carlos III (ISCIII), and the INCLIVA Biomedical Research Institute, in the Dept. of Physiology at the Medicine and Dentistry School at the University of Valencia, Spain. Dr. García-Giménez is founder and CEO of EpiDisease S.L. (Spin-Off of CIBER-ISCIII), which develops the technology based on the patent EP15382319.0, currently in national phases (USTPO, EPO, CIPO and SIPO). EpiDisease received NEOTEC funds from CDTI and the Seal of Excellence from the European Commission in the SME Instrument Phase II H2020. Dr. García-Giménez has received 7 scientific and entrepreneurship national and international awards, including the National Award for Young Entrepreneurs in 2013 (awarded by the Spanish Ministry of Health) and the European Young Researcher from the Free Radical Research Society in 2009 and more recently the Eureka Innovation and Entrepreneurship Award in Melbourne (Australia). Dr. Garcia-Gimenez is a researcher at the University of Valencia. He is early in his career, but has been noticed as an up-and-coming authority in epigenetic biomarker research as it relates to disease, stress, and exercise.
