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14. Contributors

Author

Aguayo, Luis G., primary, Ahmed, Marium, additional, Ahmed, Mohamed H., additional, Ahmed, Musaab, additional, Albuquerque, Hélio M.T., additional, Alonso, Alicia, additional, Ashkar, Rana, additional, Azzaz, Fodil, additional, Baier, Carlos J., additional, Barrantes, Francisco J., additional, Bednarska-Makaruk, Małgorzata, additional, Bell, Andrew S., additional, Benito-Vicente, Asier, additional, Brown, Michael F., additional, Bukiya, Anna N., additional, Burgos, Carlos F., additional, Chahinian, Henri, additional, Chatuphonprasert, Waranya, additional, Chong, Parkson Lee-Gau, additional, Cicero, Arrigo F.G., additional, Cincione, Ivan R., additional, Clemente, Tatiana M., additional, Cook, George A., additional, Cournia, Zoe, additional, Di Scala, Coralie, additional, Doktorova, Milka, additional, Doole, Fathima T., additional, Dopico, Alex M., additional, Drosos, Alexandros A., additional, Du, Hong, additional, Elam, Marshall B., additional, Ellinger, Isabella, additional, Fantini, Jacques, additional, Ferrari, Filipe, additional, Galicia-Garcia, Unai, additional, García-Arribas, Aritz B., additional, Gilk, Stacey D., additional, Goñi, Félix M., additional, Gonzalez-Sanmiguel, Juliana, additional, Grabowski, Gregory A., additional, Gupta, Sudipta, additional, Herfel, Tina, additional, Hu, DanRong, additional, Huang, Juyang, additional, Jebari-Benslaiman, Shifa, additional, Jiang, Qiu-Xing, additional, Karr, Samantha, additional, Khelashvili, George, additional, Kiriakidi, Sofia, additional, Kovacs, Tamas, additional, Kumarage, Teshani, additional, Lardinois, Claude K., additional, Larrea-Sebal, Asier, additional, Levitan, Irena, additional, Li, Hanxuan, additional, Li, Wei, additional, Lohoff, Falk W., additional, Ługowska, Agnieszka, additional, Martin, Cesar, additional, Martins, Vítor M., additional, Mavromoustakos, Thomas, additional, Mc Auley, Mark T., additional, Mital, Dushyant, additional, Moore,, Bob M., additional, Morgan, Amy E., additional, Mouritsen, Ole G., additional, Mysiewicz, Steven, additional, North, Kelsey C., additional, O’Connell, Emma M., additional, Pasenkiewicz-Gierula, Marta, additional, Qian, ZhiYong, additional, Roa, Jorge P., additional, Rosenhouse-Dantsker, Avia, additional, Santos, Clementina M.M., additional, Silva, Artur M.S., additional, Slayden, Alexandria, additional, Soliman, Ghada A., additional, Stein, Natalia, additional, Stein, Ricardo, additional, Subczynski, Witold K., additional, Sugár, István P., additional, Szente, Lajos, additional, Uribe, Kepa B., additional, Varga, Zoltan, additional, Venetsanopoulou, Aliki I., additional, Voulgari, Paraskevi V., additional, Welty, Francine K., additional, Widomska, Justyna, additional, Yahi, Nouara, additional, Zadak, Zdenek, additional, and Zakany, Florina, additional

Published
2022
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19. Contributors to Volume 1

Author

Aggett, Peter J., primary, Ahnen, Rylee T., additional, Aydemir, Tolunay Beker, additional, Bailey, Lynn B., additional, Bettendorff, Lucien, additional, Blaner, William S., additional, Borum, Peggy R., additional, Bruno, Richard S., additional, Calder, Philip C., additional, Caudill, Marie A., additional, Cheuvront, Samuel N., additional, Coates, Paul M., additional, Collins, James F., additional, Costello, Rebecca B., additional, da Silva, Vanessa R., additional, Diamond, Alan Mark, additional, Ferland, Guylaine, additional, Fleet, James C., additional, Fukagawa, Naomi K., additional, Gregory, Jesse F., additional, Gutiérrez, Orlando M., additional, Haggans, Carol J., additional, Hong, Lenny K., additional, Johnson, Ian T., additional, Johnston, Carol S., additional, Jones, Peter J.H., additional, Kenefick, Robert W., additional, Kirkland, James B., additional, Leone, Vanessa A., additional, Lichtenstein, Alice H., additional, Mc Auley, Mark Tomás, additional, McCormick, Donald B., additional, Merrill, Alfred H., additional, Miller, Joshua W., additional, Montain, Scott J., additional, Mottet, Rachel, additional, Nielsen, Forrest H., additional, Omolo, Morrine, additional, Penberthy, William Todd, additional, Pierre, Joseph F., additional, Preuss, Harry G., additional, Rosanoff, A., additional, Rucker, Robert B., additional, Ryu, Moon-Suhn, additional, Sadri, Mahrou, additional, Sawka, Michael N., additional, Shapses, Sue A., additional, Slavin, Joanne, additional, Stabler, Sally P., additional, Thomas, Paul R., additional, Traber, Maret G., additional, Trujillo-Gonzalez, Isis, additional, Vincent, John B., additional, von Lintig, Johannes, additional, Weaver, Connie M., additional, West, Allyson A., additional, Westerterp, Klaas R., additional, Williamson, Gary, additional, Yaqoob, Parveen, additional, Yu, Yong-Ming, additional, Zeisel, Steven H., additional, Zempleni, Janos, additional, and Zimmermann, Michael B., additional

Published
2020
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25. List of Contributors

Author

Abdel-Rahman, Emaad M., primary, Ackerman, Hayley D., additional, Akintola, Abimbola, additional, Amdam, Gro V., additional, Atzmon, Gil, additional, Austad, Steve, additional, Awate, Sanket, additional, Balaskó, Márta, additional, Banerjee, Taraswi, additional, Bárcena, Clea, additional, Bartke, Andrzej, additional, Bassi, Ivan, additional, Berendt, Mette, additional, Bijlsma, Maarten F., additional, Bitto, Alessandro, additional, Bizon, Jennifer L., additional, Bollaerts, Ilse, additional, Bonomi, Marco, additional, Borras, Consuelo, additional, Bowman, Brendan T., additional, Brioche, Thomas, additional, Brosh, Robert M., additional, Brown, Richard E., additional, Buck, Kerstin, additional, Burke, Sara N., additional, Buzgariu, Wanda, additional, Cacabelos, Ramón, additional, Camina Martín, M.A., additional, Chaffee, Beth K., additional, Chan, Anthony W.S., additional, Chen, Haolin, additional, Chen, Zhiguo, additional, Cho, In K., additional, Chopard, Angèle, additional, Cogger, Victoria C., additional, Cohen, Alan A., additional, Confino, Rafael, additional, Coppedè, Fabio, additional, Costa, Anthony J., additional, Crouch, Jack D., additional, Darcy, Justin, additional, De Groef, Lies, additional, de Mateo Silleras, B., additional, Deepa, Sathyaseelan S., additional, Devau, Gina, additional, Dhenain, Marc, additional, Dills, Chantelle, additional, Duffy, Megan F., additional, Duncan, Francesca E., additional, Dupuis, Gilles, additional, Eaton, Benjamin A., additional, Egan, Josephine M., additional, Ekundayo, Kazadi, additional, Emborg, Marina E., additional, Fischer, D. Luke, additional, Fontes, Pascaline, additional, Fortepiani, Maria Lourdes Alarcon, additional, Fortin, Carl, additional, Franzke, Bernhard, additional, Fülöp, Tamas, additional, Gabriel, Camelia, additional, Galliot, Brigitte, additional, Gambini, Juan, additional, Garneau, Hugo, additional, Gasparini, Laura, additional, Gerhard, Glenn S., additional, Gibson, David C., additional, Gimeno-Mallench, Lucia, additional, Girard, Victor, additional, Greer, Kimberly A., additional, Gribble, Kristin E., additional, Gubbels Bupp, Melanie R., additional, Gudmundsson, Adalsteinn, additional, Hamann, Andrea, additional, Hamblin, Michael R., additional, Harper, James M., additional, Hart, Ronald, additional, Head, Elizabeth, additional, Herd, Heather R., additional, Herrera, Guadalupe, additional, Hisama, Fuki M., additional, Hogan, David B., additional, Holmes, Donna J., additional, Hornsby, Peter J., additional, Howlett, Susan E., additional, Hui, Ka Yi, additional, Jahn, Thomas R., additional, Jávega, Beatriz, additional, Jeffery, William R., additional, Johnson, Sarah A., additional, Jones, Audrey, additional, Jones, Corinne A., additional, Jónsson, Pálmi V., additional, Kane, Alice E., additional, Karasik, David, additional, Kean, Samuel, additional, Keller, Evan T., additional, Keller, Jill M., additional, Kemp, Christopher J., additional, Wong, Ken S.K., additional, Krøll, Jens, additional, Kumar Bharti, Sanjay, additional, Kurkinen, Markku, additional, Larbi, Anis, additional, Lasbleiz, Christelle, additional, Lautier, Corinne, additional, Le Couteur, David G., additional, Le Page, Aurelie, additional, Lin, Hang, additional, López-Otín, Carlos, additional, Lottonen-Raikaslehto, Line, additional, Magden, Elizabeth R., additional, Makrantonaki, Evgenia, additional, Manfredsson, Fredric P., additional, Mark Welch, David B., additional, Marques-Lopes, Jose, additional, Martínez-Romero, Alicia, additional, Mas-Bargues, Cristina, additional, Mayoral, Pablo, additional, Mc Auley, Mark, additional, McQuail, Joseph A., additional, Merentie, Mari, additional, Mestre-Frances, Nadine, additional, Metzger, Jeanette M., additional, Meyer, Keith C., additional, Milner, Teresa A., additional, Mizutani, Claudia M., additional, Monnat, Raymond J., additional, Mooney, Kathleen, additional, Moons, Lieve, additional, Muck, Joscha, additional, Muniyappa, Ranganath, additional, Nehlin, Jan O., additional, Neubauer, Oliver, additional, Nikolakis, Georgios, additional, Nyman, Jeffry S., additional, O’Connor, José-Enrique, additional, Oshima, Junko, additional, Osiewacz, Heinz D., additional, Papadopoulos, Vassilios, additional, Pavone, Mary Ellen, additional, Pawelec, Graham, additional, Pedersen, Jan T., additional, Perez-Lopez, Gonzalo, additional, Persani, Luca, additional, Pétervári, Erika, additional, Peyman, Azadeh, additional, Plate, Johannes F., additional, Polinski, Nicole K., additional, Py, Guillaume, additional, Quigley, Tyler P., additional, Rae, Eric A., additional, Ram, Jeffrey L., additional, Raubenheimer, David, additional, Reckelhoff, Jane F., additional, Redondo del Río, M.P., additional, Rex-Al Panem Orbon, Jovy, additional, Richardson, Arlan, additional, Ripperger, Jürgen A., additional, Rostás, Ildikó, additional, Rouse, Michael, additional, Rueppell, Olav, additional, Runge, Kurt W., additional, Safdar, Maryam, additional, Sankaran-Walters, Sumathi, additional, Santago, Anthony C., additional, Sarvimäki, Anneli, additional, Saul, Katherine R., additional, Schenkelaars, Quentin, additional, Schneider, Brandt L., additional, Schütt, Trine, additional, Shen, He, additional, Shin, Sooyoun, additional, Simpson, Stephen J., additional, Smith, Jessica, additional, Snell, Terry W., additional, Snyder, Jessica M., additional, Solon-Biet, Samantha M., additional, Soós, Szilvia, additional, Sortwell, Caryl E., additional, Sousa-Neves, Rui, additional, Steece-Collier, Kathy, additional, Steins, Anne, additional, Sujkowski, Alyson, additional, Swanberg, Susan E., additional, Teijido, Oscar, additional, Tella, Sri Harsha, additional, Tenk, Judit, additional, Tomczyk, Szymon, additional, Treuting, Piper M., additional, Trouche, Stéphanie G., additional, Tuan, Rocky S., additional, Unnikrishnan, Archana, additional, Valenzano, Dario Riccardo, additional, van Heemst, Diana, additional, Van houcke, Jessie, additional, Van Kempen, Tracey A., additional, van Laarhoven, Hanneke W.M., additional, Verdier, Jean-Michel, additional, Viña, Jose, additional, Wagner, Karl-Heinz, additional, Wahl, Devin, additional, Wenger, Yvan, additional, Wessells, Robert J., additional, Wilcock, Donna M., additional, Witkowski, Jacek M., additional, Wong, Esther, additional, Woodland, Nicole, additional, Yanes Cardozo, Licy L., additional, Ylä-Herttuala, Seppo, additional, Youssef, Sameh A., additional, Yuan, Rong, additional, Zhang, Haitao, additional, Zhou, Zhongjun, additional, Zirkin, Barry R., additional, and Zouboulis, Christos C., additional

Published
2018
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29. The Interdependency and Co-Regulation of the Vitamin D and Cholesterol Metabolism

Author

Warren, Tara, primary, McAllister, Roisin, additional, Morgan, Amy, additional, Rai, Taranjit Singh, additional, McGilligan, Victoria, additional, Ennis, Matthew, additional, Page, Christopher, additional, Kelly, Catriona, additional, Peace, Aaron, additional, Corfe, Bernard M., additional, Mc Auley, Mark, additional, and Watterson, Steven, additional

Published
2021
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36. Data-driven selection and parameter estimation for DNA methylation mathematical models

Author

Larson, Karen, Zagkos, Loukas, Mc Auley, Mark, Roberts, Jason, Kavallaris, Nikos I., Matzavinos, Anastasios, Larson, Karen, Zagkos, Loukas, Mc Auley, Mark, Roberts, Jason, Kavallaris, Nikos I., and Matzavinos, Anastasios

Abstract

Epigenetics is coming to the fore as a key process which underpins health. In particular emerging experimental evidence has associated alterations to DNA methylation status with healthspan and aging. Mammalian DNA methylation status is maintained by an intricate array of biochemical and molecular processes. It can be argued changes to these fundamental cellular processes ultimately drive the formation of aberrant DNA methylation patterns, which are a hallmark of diseases, such as cancer, Alzheimer’s disease and cardiovascular disease. In recent years mathematical models have been used as effective tools to help advance our understanding of the dynamics which underpin DNA methylation. In this paper we present linear and nonlinear models which encapsulate the dynamics of the molecular mechanisms which define DNA methylation. Applying a recently developed Bayesian algorithm for parameter estimation and model selection, we are able to estimate distributions of parameters which include nominal parameter values. Using limited noisy observations, the method also identified which methylation model the observations originated from, signaling that our method has practical applications in identifying what models best match the biological data for DNA methylation.

Published
2019
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41. Modelling the molecular mechanisms of aging

Author

Mc Auley, Mark T., Guimera, Alvaro Martinez, Hodgson, David, Mcdonald, Neil, Mooney Proctor, Kathleen M., Morgan, Amy E, Proctor, Carole J., Mc Auley, Mark T., Guimera, Alvaro Martinez, Hodgson, David, Mcdonald, Neil, Mooney Proctor, Kathleen M., Morgan, Amy E, and Proctor, Carole J.

Abstract

The aging process is driven at the cellular level by random molecular damage that slowly accumulates with age. Although cells possess mechanisms to repair or remove damage, they are not 100% efficient and their efficiency declines with age. There are many molecular mechanisms involved and exogenous factors such as stress also contribute to the aging process. The complexity of the aging process has stimulated the use of computational modelling in order to increase our understanding of the system, test hypotheses and make testable predictions. As many different mechanisms are involved, a wide range of models have been developed. This paper gives an overview of the types of models that have been developed, the range of tools used, modelling standards and discusses many specific examples of models that have been grouped according to the main mechanisms that they address. We conclude by discussing the opportunities and challenges for future modelling in this field.

Published
2017

42. Modelling the molecular mechanisms of aging

Author

Mc Auley, Mark T., primary, Guimera, Alvaro Martinez, additional, Hodgson, David, additional, Mcdonald, Neil, additional, Mooney, Kathleen M., additional, Morgan, Amy E., additional, and Proctor, Carole J., additional

Published
2017
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44. Obesity and the dysregulation of fatty acid metabolism: implications for healthy aging

Author

Morgan, Amy, Mooney, Kathleen, Mc Auley, Mark, Morgan, Amy, Mooney, Kathleen, and Mc Auley, Mark

Abstract

ntroduction: The population of the world is aging. In 2010, an estimated 524 million people were aged 65 years or older presenting eight percent of the global population. By 2050, this number is expected to nearly triple to approximately 1.5 billion, 16 percent of the world’s population. Although people are living longer, the quality of their lives are often compromised due to ill-health. Areas covered: Of the conditions which compromise health as we age, obesity is at the forefront. Over half of the global older population were overweight or obese in 2010, significantly increasing the risk of a range of metabolic diseases. Although, it is well recognised excessive calorie intake is a fundamental driver of adipose tissue dysfunction, the relationship between obesity; intrinsic aging; and fat metabo- lism is less understood. In this review we discuss the intersection between obesity, aging and the factors which contribute to the dysregulation of whole-body fat metabolism. Expert commentary: Being obese disrupts an array of physiological systems and there is significant crosstalk among these. Moreover it is imperative to acknowledge the contribution intrinsic aging makes to the dysregulation of these systems and the onset of disease.

Published
2016

45. Computational modelling folate metabolism and DNA methylation: implications for understanding health and ageing

Author

Mc Auley, Mark T., Mooney, Kathleen, Salcedo-Sora, J. Enrique, Mc Auley, Mark T., Mooney, Kathleen, and Salcedo-Sora, J. Enrique

Abstract

Dietary folates have a key role to play in health, as deficiencies in the intake of these B vitamins have been implicated in a wide variety of clinical conditions. The reason for this is folates function as single carbon donors in the synthesis of methio- nine and nucleotides. Moreover, folates have a vital role to play in the epigenetics of mammalian cells by supplying methyl groups for DNA methylation reactions. Intriguingly, a growing body of experimental evidence suggests that DNA methyla- tion status could be a central modulator of the ageing process. This has important health implications because the methyla- tion status of the human genome could be used to infer age-related disease risk. Thus, it is imperative we further our understanding of the processes which underpin DNA methylation and how these intersect with folate metabolism and age- ing. The biochemical and molecular mechanisms, which underpin these processes, are complex. However, computational modelling offers an ideal framework for handling this complexity. A number of computational models have been assembled over the years, but to date, no model has represented the full scope of the interaction between the folate cycle and the reactions, which governs the DNA methylation cycle. In this review, we will discuss several of the models, which have been developed to represent these systems. In addition, we will present a rationale for developing a combined model of folate metabolism and the DNA methylation cycle.

Published
2016

49. Cardiovascular disease and healthy ageing

Author

Mooney, Kathleen M., Mc Auley, Mark T., Mooney, Kathleen M., and Mc Auley, Mark T.

Abstract

Cardiovascular diseases are main cause of morbidity and mortality in the Western World. Cardiovascular disease increases in its prevalence with age and the burden of this condition is set to increase with an Ageing global population. There are many factors that impact cardiovascular disease risk. The aim of this brief commentary is to explore some of these factors; specifically, we will examine the role of social status, nutrition and, psychological stress in modulating cardiovascular disease risk. Our aim is to emphasise the multidimensional nature of this condition and to stress that a more complete understanding of the mechanisms which underpin its pathology can only be achieved by adopting an integrated approach which treats the progression of this disease in a more holistic fashion.

Published
2015

50. Mathematical Modelling of Metabolic Regulation in Aging

Author

Mc Auley, Mark T., Mooney, Kathleen M., Angell, Peter J., Wilkinson, Stephen J., Mc Auley, Mark T., Mooney, Kathleen M., Angell, Peter J., and Wilkinson, Stephen J.

Abstract

The underlying cellular mechanisms that characterize aging are complex and multifaceted. However, it is emerging that aging could be regulated by two distinct metabolic hubs. These hubs are the pathway defined by the mammalian target of rapamycin (mTOR) and that defined by the NAD+-dependent deacetylase enzyme, SIRT1. Recent experimental evidence suggests that there is crosstalk between these two important pathways; however, the mechanisms underpinning their interaction(s) remains poorly understood. In this review, we propose using computational modelling in tandem with experimentation to delineate the mechanism(s). We briefly discuss the main modelling frameworks that could be used to disentangle this relationship and present a reduced reaction pathway that could be modelled. We conclude by outlining the limitations of computational modelling and by discussing opportunities for future progress in this area

Published
2015

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