Publications by Dr Daryl Shanley - ePrints

Browsing publications by Dr Daryl Shanley.

Newcastle Authors	Title	Year
Dr Daryl Shanley	Strengths and opportunities in research into extracellular matrix ageing: A consultation with the ECMage research community	2024
Dr Krutik Patel Dr Matthew Barter Dr Jamie Soul Dr Peter Clark Dr Carole Proctor et al.	Systems analysis of miR-199a/b-5p and multiple miR-199a/b-5p targets during chondrogenesis	2024
Sharmilla Chandrasegaran Rebekah Scanlan Dr Peter Clark Dr Louise Pease Dr James Wordsworth et al.	Systems Biology of Ageing	2023
Dr Louise Pease Rebekah Scanlan Dr Daryl Shanley	The DNA repair enzyme, aprataxin, plays a role in innate immune signaling.	2023
Dr Alvaro Martinez Guimera Dr Peter Clark Dr James Wordsworth Dr Daryl Shanley	Systems modelling predicts chronic inflammation and genomic instability prevent effective mitochondrial regulation during biological ageing	2022
Dr James Wordsworth Hannah O'Keefe Dr Peter Clark Dr Daryl Shanley	The damage-independent evolution of ageing by selective destruction	2022
Krutik Patel Sharmilla Chandrasegaran Dr Carole Proctor Professor David Young Dr Daryl Shanley et al.	TimiRGeN: R/Bioconductor package for time series microRNA–mRNA integration and analysis	2021
Dr Daryl Shanley	Cytosolic self-DNA—A potential source of chronic inflammation in aging	2021
Alvaro Martinez Guimera Dr Daryl Shanley Dr Carole Proctor	Modelling the role of redox-related mechanisms in musculoskeletal ageing	2019
Alvaro Martinez Guimera Ciaran Welsh Dr Carole Proctor Dr Daryl Shanley	'Molecular habituation' as a potential mechanism of gradual homeostatic loss with age	2018
Dr Craig Stamp Dr Anze Zupanic Ashwin Sachdeva Dr Elizabeth Stoll Dr Daryl Shanley et al.	Predominant Asymmetrical Stem Cell Fate Outcome Limits the Rate of Niche Succession in Human Colonic Crypts	2018
Dr ciaran Welsh Dr Nicola Fullard Dr Carole Proctor Alvaro Martinez Guimera Dr Daryl Shanley et al.	PyCoTools: a Python toolbox for COPASI	2018
Dr Louise Pease Dr Carole Proctor Dr Daryl Shanley Dr Simon Cockell	Cross platform analysis of transcriptomic data identifies ageing has distinct and opposite effects on tendon in males and females	2017
Annette King Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Explaining sex differences in lifespan in terms of optimal energy allocation in the baboon	2017
Dr Joost Van Den Heuvel Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Growing more positive with age: The relationship between reproduction and survival in aging flies	2017
Dr Joost Van Den Heuvel Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Pervasive gene expression responses to a fluctuating diet in Drosophila melanogaster: The importance of measuring multiple traits to decouple potential mediators of life span and reproduction	2017
Ciaran Welsh Dr Glyn Nelson Dr Daryl Shanley	Systems modelling ageing: From single senescent cells to simple multi-cellular models	2017
Philip Hall Dr Daryl Shanley	A systems study reveals concurrent activation of AMPK and mTOR by amino acids	2016
Lewis Tomalin Dr Alison Day Zoe Underwood Dr Graham Smith Dr Piero Dalle Pezze et al.	Increasing extracellular H₂O₂ produces a bi-phasic response in intracellular H₂O₂with peroxiredoxin hyperoxidation only triggered once the cellular H₂O₂-buffering capacity is overwhelmed	2016
Dr Anze Zupanic Dr Catherine Meplan Grazielle Huguenin Professor John Hesketh Dr Daryl Shanley et al.	Modeling and gene knockdown to assess the contribution of nonsense-mediated decay, premature termination, and selenocysteine insertion to the selenoprotein hierarchy	2016
Dr Daryl Shanley Alex Houston Emeritus Professor Thomas Kirkwood	A dynamic framework for the study of optimal birth intervals reveals the importance of sibling competition and mortality risks	2015
Dr Matthew Barter Maria Tselepi Dr Rodolfo Gomez Steven Woods Dr Graham Smith et al.	Genome-wide microRNA and gene analysis of mesenchymal stem cell chondrogenesis identifies an essential role and multiple targets for miR-140-5p	2015
Dr David Dolan Dr Anze Zupanic Dr Glyn Nelson Philip Hall Dr Satomi Miwa et al.	Integrated Stochastic Model of DNA Damage Repair by Non-homologous End Joining and p53/p21- Mediated Early Senescence Signalling	2015
Dr Anze Zupanic Dr Catherine Meplan Dr Sushma Grellscheid Professor John Mathers Emeritus Professor Thomas Kirkwood et al.	Detecting translational regulation by change point analysis of ribosome profiling data sets	2014
Dr Piero Dalle Pezze Dr Glyn Nelson Gisela Otten Professor Viktor Korolchuk Emeritus Professor Thomas Kirkwood et al.	Dynamic Modelling of Pathways to Cellular Senescence Reveals Strategies for Targeted Interventions	2014
Dr Joost Van Den Heuvel Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	The plastic fly: the effect of sustained fluctuations in adult food supply on life-history traits	2014
Dr Graham Smith Dr Daryl Shanley	Computational modelling of the regulation of Insulin signalling by oxidative stress	2013
David Dolan Dr Glyn Nelson Dr Anze Zupanic Dr Graham Smith Dr Daryl Shanley et al.	Systems Modelling of NHEJ Reveals the Importance of Redox Regulation of Ku70/80 in the Dynamics of DNA Damage Foci	2013
Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	The Predictive Adaptive Response: Modeling the Life-History Evolution of the Butterfly Bicyclus anynana in Seasonal Environments	2013
Piero Dalle Pezze Dr Daryl Shanley	A Dynamic Network Model of mTOR Signaling Reveals TSC-Independent mTORC2 Regulation	2012
Dr Daryl Shanley	A modelling-experimental approach reveals insulin receptor substrate (IRS)-dependent regulation of adenosine monosphosphate-dependent kinase (AMPK) by insulin	2012
Piero Dalle Pezze Dr Daryl Shanley	A modelling–experimental approach reveals insulin receptor substrate (IRS)-dependent regulation of adenosine monosphosphate-dependent kinase (AMPK) by insulin	2012
Dr Conor Lawless Dr Diana Jurk Dr Colin Gillespie Dr Daryl Shanley Dr Gabriele Saretzki et al.	A Stochastic Step Model of Replicative Senescence Explains ROS Production Rate in Ageing Cell Populations	2012
Armin Rashidi Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Evolution of Asymmetric Damage Segregation: A Modelling Approach	2012
Dr Daniel Swan Dr Daryl Shanley Professor John Hesketh	Glutathione Peroxidase 4 has a major role in protecting mitochondria from oxidative damage and maintaining oxidative phosphorylation complexes in gut epithelial cells	2012
Piero Dalle Pezze Dr Daryl Shanley	Response to Comment on "A Dynamic Network Model of mTOR Signaling Reveals TSC-Independent mTORC2 Regulation": Building a Model of the mTOR Signaling Network with a Potentially Faulty Tool	2012
Dr Graham Smith Dr Daryl Shanley	Modelling the Response of FOXO Transcription Factors to Multiple Post-Translational Modifications Made by Ageing-Related Signalling Pathways	2010
Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	The connections between general and reproductive senescence and the evolutionary basis of menopause	2010
Dr Daryl Shanley	An evolutionary perspective on the mechanisms of immunosenescence	2009
Armin Rashidi Dr Daryl Shanley	Evolution of the menopause: life histories and mechanisms	2009
Armin Rashidi Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Metabolic evolution suggests an explanation for the weakness of antioxidant defences in beta-cells	2009
Armin Rashidi Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	On the Surprising Weakness of Pancreatic Beta-Cell Antioxidant Defences: An Evolutionary Perspective	2009
Dr Carole Proctor Professor David Lydall Professor Richard Boys Dr Colin Gillespie Dr Daryl Shanley et al.	Modelling the checkpoint response to telomere uncapping in budding yeast	2007
Dr Daryl Shanley Emeritus Professor Thomas Kirkwood	Testing evolutionary theories of menopause	2007
Dr Colin Gillespie Professor Darren Wilkinson Dr Daryl Shanley Dr Carole Proctor Professor Richard Boys et al.	BASIS: an internet resource for network modelling.	2006
Dr Daryl Shanley Emeritus Professor Thomas Kirkwood	Caloric restriction does not enhance longevity in all species and is unlikely to do so in humans	2006
Emeritus Professor Thomas Kirkwood Professor Richard Boys Dr Colin Gillespie Dr John Proctor Dr Daryl Shanley et al.	Computer modeling in the study of aging	2006
Dr Colin Gillespie Professor Darren Wilkinson Dr Carole Proctor Dr Daryl Shanley Professor Richard Boys et al.	Tools for the SBML community	2006
Emeritus Professor Thomas Kirkwood Professor Richard Boys Dr Colin Gillespie Dr John Proctor Dr Daryl Shanley et al.	Computer Modeling in the Study of Aging	2005
Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Food restriction, evolution and ageing	2005
Dr Carole Proctor Professor Richard Boys Dr Colin Gillespie Dr Daryl Shanley Professor Darren Wilkinson et al.	Modelling the actions of chaperones and their role in ageing	2005
Dr Colin Gillespie Dr Carole Proctor Dr Daryl Shanley Professor Darren Wilkinson Professor Richard Boys et al.	Web-services for the biology community: the BASIS project	2005
Dr Colin Gillespie Dr Carole Proctor Professor Richard Boys Dr Daryl Shanley Professor Darren Wilkinson et al.	A mathematical model of ageing in yeast	2004
Emeritus Professor Thomas Kirkwood Professor Richard Boys Dr Colin Gillespie Dr Carole Proctor Dr Daryl Shanley et al.	Towards an e-biology of ageing: Integrating theory and data	2003
Dr Daryl Shanley Emeritus Professor Thomas Kirkwood	Caloric restriction, life-history evolution, and bioenergetics: Response to Mitteldorf	2001
Dr Daryl Shanley Emeritus Professor Thomas Kirkwood	Evolution of the human menopause	2001
Dr Daryl Shanley	The fitness of twin mothers: Evidence from rural Gambia	2001
Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Caloric restriction, hormesis and life history plasticity	2000
Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Caloric restriction, hormesis and life-history plasticity	2000
Dr Daryl Shanley Emeritus Professor Thomas Kirkwood	Calorie Restriction and Aging: A Life-History Analysis	2000
Emeritus Professor Thomas Kirkwood Dr Daryl Shanley	Evolution, stress, and longevity	2000