Publication List

We ask our users to acknowledge use of the UEA HPC facilities by including the following in any publication resulting from work carried out on the HPC.  The first part of the statement can be modified as appropriate; but we appreciate consistent use of the bold part of the statement.

"The research presented in this paper was carried out on the High Performance Computing Cluster supported by the Research and Specialist Computing Support service at the University of East Anglia"

Journal Papers

2023

• Combining bird tracking data with high-resolution thermal mapping to identify microclimate refugia, Rita F. Ramos, Aldina M. A. Franco, James J. Gilroy & João P. Silva , Scientific Reports, 13, 4726, 2023

• Large Modeling Uncertainty in Projecting Decadal Surface Ozone Changes Over City Clusters of China, Xiang Weng, Jiawei Li, Grant L. Forster, Peer Nowack, Geophysical Research Letters, 2023

• Developmental diet alters the fecundity-longevity relationship and age-related gene expression in Drosophila melanogaster , David H Collins, PhD, David C Prince, PhD, Jenny L Donelan, MSc, Tracey Chapman, PhD, Andrew F G Bourke, PhD, The Journals of Gerontology: Series A, 2023

• Fingerprint of Climate Change on Southern Ocean Carbon Storage, Wright, R. M., Le Quéré, C., Mayot, N., Olsen, A. & Bakker, D. C. E., Apr 2023, In: Global Biogeochemical Cycles. 37, 4, e2022GB007596, 2023

• Climate-driven variability of the Southern Ocean CO₂ sink, Mayot, N., Le Quéré, C., Rödenbeck, C., Bernardello, R., Bopp, L., Djeutchouang, L. M., Gehlen, M., Gregor, L., Gruber, N., Hauck, J., Iida, Y., Ilyina, T., Keeling, R. F., Landschützer, P., Manning, A. C., Patara, L., Resplandy, L., Schwinger, J., Séférian, R., Watson, A. J. & 2 others, Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences. 381, 2249, 20220055, 2023

• Pelagic connectivity of European sea bass between spawning and nursery grounds, Graham JA, Watson JW, García García LM, Bradley K, Bradley R, Brown M, Ciotti BJ, Goodwin D, Nash RDM, Roche WK, Wogerbauer C and Hyder K,  Front. Mar. Sci. 9:1046585, 2023

• The impact of stochastic mesoscale weather systems on the Atlantic Ocean, Zhou, S., I.A. Renfrew and X. Zhai, J. Climate, 36, 791-804, 2023

• Improved taxonomic annotation of Archaea communities using LotuS2, the Genome Taxonomy Database and RNAseq data, Grant, A., Aleidan, A., Davies, C. S., Udochi, S. C., Fritscher, J., Bahram, M., & Hildebrand, F. , bioRxiv, 2023

• Stunting in infancy is associated with atypical activation of working memory and attention networks, Sobanawartiny Wijeakumar, Samuel H. Forbes, Vincent A. Magnotta, Sean Deoni, Kiara Jackson, Vinay P. Singh, Madhuri Tiwari, Aarti Kumar, John P. Spencer, Nature Human Behaviour, 2023 in press

• The Impact of Stochastic Mesoscale Weather Systems on the Atlantic Ocean, Shenjie Zhou , Ian A. Renfrew, and Xiaoming Zhai, Journal of Climate, 2023

• Measurement of Residual Stresses in Surrogate Coated Nuclear Fuel Particles Using Ring-Core Focussed Ion Beam Digital Image Correlation, Leide AJ, Haynes TA, Tzelepi N, Payne J, Jordan M, Knol S, et al, Nuclear Materials and Energy , 36, 2023

• Peridynamic modelling of cracking in TRISO particles for high temperature reactors, TA Haynes et al, Journal of Nuclear Material, 576, 2023

• Costs of reproduction are present but latent in eusocial bumblebee queens, DH Collins, DC Prince, JL Donelan et al, BMC Biol 21, 153, 2023

2022

• North Atlantic Oscillation response to the Madden-Julian Oscillation in a coupled climate model, Skinner DT, Matthews AJ, Stevens DP, 2022: Weath., 77, 201-205, 2022

• Global Carbon Budget 2022, Friedlingstein, P., O'Sullivan, M., Jones, M. W., Andrew, R. M., Gregor, L., Hauck, J., Le Quéré, C., Luijkx, I. T., Olsen, A., Peters, G. P., Peters, W., Pongratz, J., Schwingshackl, C., Sitch, S., Canadell, J. G., Ciais, P., Jackson, R. B., Alin, S. R., Alkama, R., Arneth, A. & 86 others, In: Earth System Science Data. 14, 11, p. 4811-4900 90 p, 2022

• A Model to Detect Significant Prostate Cancer Integrating Urinary Peptide and Extracellular Vesicle RNA Data, O’Connell SP, Frantzi M, Latosinska A, Webb M, Mullen W, Pejchinovski M, et al, Cancers 2022 Apr 14;14(8):1995, 2022

• Microbiomes of Urine and the Prostate Are Linked to Human Prostate Cancer Risk Groups, Hurst R, Meader E, Gihawi A, Rallapalli G, Clark J, Kay GL, et al., European Urology Oncology, 2022 

• The architecture of clonal expansions in morphologically normal tissue from cancerous and non-cancerous prostates, Buhigas C, Warren AY, Leung WK, Whitaker HC, Luxton HJ, Hawkins S, et al. Molecular Cancer , 2022 Sep 22 [cited 2022 Sep 22];21(1):183

• Topological superfluid defects with discrete point group symmetries, Xiao, Y., Borgh, M.O., Blinova, A. et al., Nat Commun 13, 4635, 2022

• Motion stereo at sea: Dense 3D reconstruction from image sequences monitoring conveyor systems on board fishing vessels, Mark Fisher, Geoffrey French, Artjoms Gorpincenko, Helen Holah, Lauren Clayton, Rebecca Skirrow, Michal Mackiewicz, Institution of Engineering and Technology, 2022

• Global Carbon Budget 2021, Corinne Le Quéré et al, Earth System Science Data, 14, 2022

• A machine learning approach to quantify meteorological drivers of ozone pollution in China from 2015 to 2019, Xiang Weng, Grant L. Forster, and Peer Nowack, Atmospheric Chemistry and Physics, 2022

• Word-Object Learning via Visual Exploration in Space (WOLVES): A neural process model of cross-situational word learning, Bhat, Ajaz A. Spencer, John P. Samuelson, Larissa K., APA PsycNet, 2022

• Identification of active gaseous-alkane degraders at natural gas seeps, Farhan Ul Haque M, Hernández M, Crombie AT, Murrell JC. ISME J, 2022

• Excited-state barrier controls E → Z photoisomerization in p-hydroxycinnamate biochromophores, Ashworth, E. K., Coughlan, N. J. A., Hopkins, W. S., Bieske, E. J. & Bull, J. N., The Journal of Physical Chemistry Letters, 2022

• Complexation of green and red Kaede fluorescent protein chromophores by a zwitterion to probe electrostatic and induction field effects, Ashworth, E. K., Stockett, M. H., Kjaer, C., Bulman Page, P. C., Meech, S. R., Nielsen, S. B. & Bull, J. N., The Journal of Physical Chemistry A, 2022

• Genetic load: genomic estimates and applications in non-model animals, Bertorelle, G., Raffini, F., Bosse, M., Bortoluzzi, C., Iannucci, A., Trucchi, E., Morales, H.E. and Van Oosterhout, C, Nature Reviews Genetics, 2022

• Genomic erosion in a demographically recovered bird species during conservation rescue, Jackson, H.A., Percival‐Alwyn, L., Ryan, C., Albeshr, M.F., Venturi, L., Morales, H.E., Mathers, T.C., Cocker, J., Speak, S.A., van Oosterhout C,. Conservation Biology, 36(4), p.e13918., 2022

• Demographic variation in space and time: implications for conservation targeting, Catriona A. Morrison, Simon J. Butler, Jacquie A. Clark, Juan Arizaga, Oriol Baltà, Jaroslav Cepák, Arantza Leal Nebot, Markus Piha, Kasper Thorup, Thomas Wenninger, Robert A. Robinson and Jennifer A. Gill, Royal Society Open Science, 2022

• Genomic associations with poxvirus across divergent island populations in Berthelot's pipit, Eleanor C. Sheppard,Claudia A. Martin,Claire Armstrong,Catalina González-Quevedo,Juan Carlos Illera,Alexander Suh,Lewis G. Spurgin,David S. Richardson, Molecular Ecology, 2022

• Structure of a cereal purple acid phytase provides new insights to phytate degradation in plants, Faba-Rodriguez R, Gu YH, Salmon M, Dionisio G, Brinch-Pedersen HA, Brearley CA, Hemmings AM, Plant Communications, 2022

• Quantification of impacts between 1.5°C and 4°C of global warming on flooding risks in six countries, He Y, Manful D, Warren, R, Forstenhäusler N, Osborn TJ, Price J, Jenkins R, Wallace C and Yamaki D, Climatic Change 170, 2022

• Monitoring global drought using the self-calibrating Palmer Drought Severity Index, Barichivich J, Osborn TJ, Harris I, van der Schrier G and Jones PD, Bulletin of the American Meteorological Society 103, S66-S67, 2022

2021

• Subsurface oceanic structure associated with atmospheric convectively coupled equatorial Kelvin waves in the eastern Indian Ocean, Azaneu MdVC, Matthews AJ, Baranowski DB, J. Geophys. Res. Oc., 126, 2021

• The response of the Nordic Seas to wintertime sea-ice retreat, Wu, Y., D. P. Stevens, I. A. Renfrew, X. Zhai,  J. Climate, 34, 6041-6056, 2021

• FORTE 2.0: a fast, parallel and flexible coupled climate model, Adam T. Blaker, Manoj Joshi, Bablu Sinha, David P. Stevens, Robin S. Smith, and Joël J.-M. Hirschi, Geoscientific Model Development, 2021

• Integration of Urinary EN2 Protein & Cell-Free RNA Data in the Development of a Multivariable Risk Model for the Detection of Prostate Cancer Prior to Biopsy, Connell S, Mills R, Pandha H, Morgan R, Cooper C, Clark J, et al.  Cancers, 2021 Apr 27;3(9):2102

• Controlled creation and decay of singly-quantized vortices in a polar magnetic phase, Xiao, Y., Borgh, M.O., Weiss, L.S. et al Commun Phys 4, 52, 2021

• Role of jellyfish in the plankton ecosystem revealed using a global ocean biogeochemical model, Rebecca M. Wright, Corinne Le Quéré, Erik Buitenhuis, Sophie Pitois, and Mark J. Gibbons, European Geosciences Union, Bioegeosciences, 2021

• Observational evidence that cloud feedback amplifies global warming, Paulo Ceppi and Peer Nowack , PNAS, 2021

• Relaxation dynamics of half-quantum vortices in a two-dimensional two-component Bose-Einstein condensate(a), M. T. Wheeler, H. Salman and M. O. Borgh, Europhysics Letters, 2021

• Non-statistical fragmentation in photo-activated flavin mononucleotide anions, Giacomozzi, L., Kjær, C., Brøndsted Nielsen, S., Ashworth, E. K., Bull, J. N. & Stockett, M. H., The Journal of Chemical Physics, 2021

• Nonadiabatic dynamics between valence, nonvalence, and continuum electronic states in a heteropolycyclic aromatic hydrocarbon, Bull, J. N., Anstöter, C. S., Stockett, M. H., Clarke, C. J., Gibbard, J. A., Bieske, E. J. & Verlet, J. R. R., The Journal of Physical Chemistry Letters, 2021

• Action spectroscopy of the isolated red Kaede fluorescent protein chromophore, Coughlan, N. J. A., Stockett, M. H., Kjaer, C., Ashworth, E. K., Bulman Page, P. C., Meech, S. R., Nielsen, S. B., Blancafort, L., Hopkins, W. S. & Bull, J. N., The Journal of Chemical Physics, 2021

• Action spectroscopy of isomer-selected luciferin anions, Kjær, C., Bull, J. N., Carrascosa, E., Nielsen, S. B. & Bieske, E. J., European Physical Journal D, 2021

• Action spectroscopy of deprotomer-selected hydroxycinnamate anions, Bull, J. N., Buntine, J. T., Carrascosa, E., Stockett, M. H. & Bieske, E. J.,  European Physical Journal D, 2021

• Comment on “Individual heterozygosity predicts translocation success in threatened desert tortoises”, Hansson, B., Morales, H.E. and Van Oosterhout, C, Science, 2021

• Bird population declines and species turnover are changing the acoustic properties of spring soundscapes, C. A. Morrison, A. Auniņš, Z. Benkő, L. Brotons, T. Chodkiewicz, P. Chylarecki, V. Escandell, D. P. Eskildsen, A. Gamero, S. Herrando, F. Jiguet, J. A. Kålås, J. Kamp, A. Klvaňová, P. Kmecl, A. Lehikoinen, Å. Lindström, C. Moshøj, D. G. Noble, I. J. Øien, J-Y. Paquet, J. Reif, T. Sattler, B. S. Seaman, S. J. Butler, Nature Communications, 2021

• Vaccination against COVID-19 and society's return to normality in England: a modelling study of impacts of different types of naturally acquired and vaccine-induced immunity, Fujian Song, Max O Bachmann, BMJ Open, 2021

• Processing pipeline for image reconstructed fNIRS analysis using both MRI templates and individual anatomy, Samuel H. Forbes,a Sobanawartiny Wijeakumar,b Adam T. Eggebrecht,c Vincent A. Magnotta,d and John P. Spencera, Neurophotonics, 2021

• Selecting Markov chain orders for generating daily precipitation series across different Köppen climate regimes, Sarah Wilson Kemsley,Timothy J. Osborn,Stephen R. Dorling,Craig Wallace,Joanne Parker, International Journal of Climatology, 2021

• Monitoring global drought using the self-calibrating Palmer Drought Severity Index, Barichivich J, Osborn TJ, Harris I, van der Schrier G and Jones PD, Bulletin of the American Meteorological Society 102, S68-S70, 2021

• HIVE-COTE 2.0: a new meta ensemble for time series classification, Matthew Middlehurst, James Large, Michael Flynn, Jason Lines, Aaron Bostrom & Anthony Bagnall,  Machine Learning volume 110, pages 3211–3243, 2021

• The great multivariate time series classification bake off: a review and experimental evaluation of recent algorithmic advances Alejandro Pasos Ruiz, Michael Flynn, James Large, Matthew Middlehurst & Anthony Bagnall, Data Mining and Knowledge Discovery volume 35, pages401–449, 2021

• Information processing on equity prices and exchange rate for cross-listed stocks, Scherrer CM, Journal of Financial Markets, Vol 54, 2021

• Genomic variation, population history and within-archipelago adaptation between island bird populations. Martin CA, Armstrong C, Illera JC, Emerson BC, Richardson DS & Spurgin LG, R. Soc. Open Sci.8: 201146.Genomic variation, population history and within-archipelago adaptation between island bird populations. Martin CA, Armstrong C, Illera JC, Emerson BC, Richardson DS & Spurgin LG.  R. Soc. Open Sci.8: 201146, 2021

• Covariation in population trends and demography reveals targets for conservation action, Catriona A. Morrison , Simon J. Butler , Robert A. Robinson et al,  Proceedings of the Royal Society Biological Sciences, 2021

2020

• A novel stratification framework for predicting outcome in patients with prostate cancer, Luca B alexandru, Moulton V, Ellis C, Edwards DR, Campbell C, Cooper RA, et al,  British journal of cancer  2020 May 20;122(10):1467–76

• Convergence of Prognostic Gene Signatures Suggests Underlying Mechanisms of Human Prostate Cancer Progression, Luca BA, Moulton V, Ellis C, Connell SP, Brewer DS, Cooper CS.,  Genes  2020 Jul 16 [cited 2020 Jul 16];11(7):802

• Superatom Picture of Collective Nonclassical Light Emission and Dipole Blockade in Atom Arrays, L. A. Williamson, M. O. Borgh, and J. Ruostekoski, Phys. Rev. Lett. 125, 073602, 2020

• Global Carbon Budget 2020, Corinne Le Quéré et al, Earth System Science Data, 12, 2020

• Temporary reduction in daily global CO₂ emissions during the COVID-19 forced confinement, Corinne Le Quéré et al, Nature Climate Change, 2020

• Breaking of Josephson junction oscillations and onset of quantum turbulence in Bose–Einstein condensates, Adam Griffin, Sergey Nazarenko and Davide Proment, Journal of Physics A: Mathematical and Theoretical, Volume 53, Number 17, 2020

• Irreversible Dynamics of Vortex Reconnections in Quantum Fluids, Alberto Villois, Davide Proment, and Giorgio Krstulovic, Physical Review Letters, 125, 164501, 2020

• Matching theory to characterize sound emission during vortex reconnection in quantum fluids, Davide Proment and Giorgio Krstulovic, Physical Review Fluids 5, 104701, 2020

• Spectroscopic characterisation of radical polyinterhalogen molecules, Gregory, J., Verlet, J. R. R. & Bull, J. N., Physical Chemistry Chemical Physics, 2020

• Photophysics of isolated Rose Bengal anions, Stockett, M. H., Kjaer, C., Daly, S., Bieske, E. J., Verlet, J. R. R., Nielsen, S. B. & Bull, J., The Journal of Physical Chemistry A, 2020

• The Influence of Atlantic Variability on Asian Summer Climate Is Sensitive to the Pattern of the Sea Surface Temperature Anomaly, Satyaban B. Ratna, Timothy J. Osborn, Manoj Joshi, and Jürg Luterbacher, American Meteorological Society, 2020

• The Extreme Positive Indian Ocean Dipole of 2019 and Associated Indian Summer Monsoon Rainfall Response, Satyaban B. Ratna,Annalisa Cherchi,Timothy J. Osborn,Manoj Joshi,Umakanth Uppara, Geophysical Research Letters, 2020

• Reconstructing Genomes of Carbon Monoxide Oxidisers in Volcanic Deposits Including Members of the Class Ktedonobacteria, Hernández, M.; Vera-Gargallo, B.; Calabi-Floody, M.; King, G.M.; Conrad, R.; Tebbe, C.C.,2020, 1880.

• Development of a multivariable risk model integrating urinary cell DNA methylation and cell-free RNA data for the detection of significant prostate cancer, Shea P. Connell BSc, Eve O'Reilly BSc, Alexandra Tuzova MSc, Martyn Webb MBioSci, Rachel Hurst PhD, Robert Mills  FRCS Urol, Fang Zhao MSc, Bharati Bapat PhD, Colin S. Cooper PhD, Antoinette S. Perry PhD, Jeremy Clark PhD, Daniel S. Brewer PhD, The Prostate, 2020

• Fingerprinting the Excited-State Dynamics in Methyl Ester and Methyl Ether Anions of Deprotonated para-Coumaric Acid, James N. Bull, Cate S. Anstöter, and Jan R. R. Verlet, J. Phys. Chem. A 2020, 124, 11, 2140–2151

• FilTar: using RNA-Seq data to improve microRNA target prediction accuracy in animals, Thomas Bradley, Simon Moxon,Bioinformatics, btaa007, 2020

• Modelling pollution dispersal around Solomon Islands and Vanuatu, Graham, J. A., Haverson, D., Bacon, J., Marine Pollution Bulletin vol. 150, 2020