Imperial College London

Dr Nick Jones

Faculty of Natural SciencesDepartment of Mathematics

Reader in Applied Mathematics and Mathematical Physics
 
 
 
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Contact

 

+44 (0)20 7594 1146nick.jones

 
 
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Location

 

301aSir Ernst Chain BuildingSouth Kensington Campus

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Summary

 

Papers

You'll find an informal, popular, discussion of our published work on our blog. Our published papers generally have a corresponding blog article.

When we can we post preprints to either arXiv or bioRxiv

2018:

Large-scale genetic analysis reveals mammalian mtDNA heteroplasmy dynamics and variance increase through lifetimes and generations,

Nature Communications

Burgstaller* JP, Kolbe T, Havlicek V, Hembach S, Poulton J, Pialek J, Steinborn R, Ruelicke T, Brem G, Jones* NS, Johnston* IG

High prevalence of focal and multi-focal somatic genetic variants in the human brain

Nature Communications

Keogh MJ, Wei W, Aryaman J, Walker L, van den Ameele J, Coxhead J, Wilson I, Bashton M, Beck J, West J, Chen R, Haudenschild C, Bartha G, Luo S, Morris CM, Jones NS, Attems J, Chinnery PF

Robust, real-time and autonomous monitoring of ecosystems with an open, low-cost, networked device,

Methods in Ecology and Evolution

Sethi SS, Ewers RM, Jones NS, Orme CDL, Picinali L

Large algebraic connectivity fluctuations in spatial network ensembles imply a predictive advantage from node location information,

Phys. Rev. E

Matt Garrod, Nick S. Jones

Quantitative approaches to energy and glucose homeostasis: machine learning and modelling for precision understanding and prediction

Royal Society Interface 

Tom McGrath, Kevin Murphy, Nick S. Jones

2017:

Looplessness in networks is linked to trophic coherence

PNAS preprint BLOG article

Samuel Johnson, Nick S. Jones


What we learn from the learning rate

Journal of Statistical Mechanics BLOG article

Rory A Brittain, Nick S Jones and Tom E Ouldridge


A biochemical machine for the interconversion of mutual information and work,

Physical Review Letters BLOG article

Tom McGrath, Nick S Jones, Peter Rein ten Wolde, Tom Ouldridge


Mitochondrial heterogeneity, metabolic scaling and cell death

BioEssays BLOG article

Juvid Aryaman, Hanne Hoitzing, Joerg Burgstaller, Iain Johnston, Nick S. Jones


Designing the optimal bit: balancing energetic cost, speed and reliability

Proceedings of the Royal Society A

Abhishek Deshpande, Manoj Gopalkrishnan, Tom Ouldridge, Nick S Jones


Chemical Boltzmann Machines

DNA23

William Poole, Andrés Ortiz-Muñoz, Abhishek Behera, Nick S. Jones, Thomas E. Ouldridge, Erik Winfree, Manoj Gopalkrishnan

 

2016:  

Towards Precision Healthcare: Context and Mathematical Challenges  

Frontiers in Physiology 

Caroline Colijn, Nick S. Jones, Iain G. Johnston, Sophia Yaliraki, Mauicio Barahona


Evolution of Cell-to-Cell Variability in Stochastic, Controlled, Heteroplasmic mtDNA Populations,

 American Journal of Human Genetics BLOG article

Iain G. Johnston, Nick S. Jones


The State of Vaccine Confidence 2016: Global Insights Through a 67-Country Survey,

Ebiomedicine BLOG article, Commentary, Science article

Heidi Larson, Alex de Figueiredo, Xiahong Z, Will Schulz, Pierre Verger, Iain G. Johnston, Alex Cook, Nick S. Jones 

 

Forecasting time-series trends in vaccination coverage and their links with socio-economic factors: A global analysis over 30 years,

Lancet Global Health BLOG article, Commentary

Alex de Figueiredo, Iain G. Johnston, David M.D. Smith, Sumeet Agarwal, Heidi Larson, Nick S. Jones


Energetic constraints on fungal growth

American Naturalist BLOG artcile

Luke L.M. Heaton, Nick S Jones, Mark Fricker


2015:

Stochastic modelling, Bayesian inference, and new in vivo measurements elucidate the debated mtDNA bottleneck mechanism

eLife BLOG article

Iain G Johnston, Joerg P Burgstaller, Vitezslav Havlicek, Thomas Kolbe, Thomas Rulicke, Gottfried Brem, Jo Poulton, Nick S Jones


Closed-form stochastic solutions for non-equilibrium dynamics and inheritance of cellular components over many cell divisions

Proceedings of the Royal Society A BLOG article

Iain G. Johnston, Nick S. Jones


What is the function of mitochondrial networks? (supplement)

BioEssays BLOG article

Hanne Hoitzing, Iain G. Johnston, Nick S. Jones

 

2014:

The mitoflash probe cpYFP does not respond to superoxide - Brief Communication Arising

Nature BLOG article

Markus Schwarzlander, S.Wagner, Y.Ermakova, V.V.Belousov, R.Radi, J.S.Beckman, G.R.Buettner, N.Demaurex, M.R.Duchen, H.J.Forman, M.D.Fricker, D.Gems, A.P. Halestrap, B.Halliwell, U.Jakob, Iain G. Johnston, Nick S. Jones, D.C. Logan, B.Morgan, F.L.Muller, D.G.Nicholls, S.James Remington, P.T.Schumacker, C.C.Winterbourn, L.J.Sweetlove, A.J.Meyer, T.P.Dick and Michael P. Murphy

 

Explicit tracking of uncertainty increases the power of quantitative rule-of-thumb reasoning in cell biology (CaladisWebsite, Nature Toolbox examples)

Biophysical Journal BLOG article

Iain G. Johnston, Ben Rickett, Nick S. Jones

 

FRIENDLY regulates mitochondrial distribution, fusion, and quality control in Arabidopsis

Plant Physiology BLOG article

Amr El Zawily, Markus Schwarzlsnder, Iris Finkemeier, Iain G Johnston, Abdelilah Benamar,Yongguo Cao, Clemence Gissot, Andreas Meyer, Ken Wilson, Raju Datla, David Macherel, Nick S. Jones and David Logan

 

How modular structure can simplify tasks on networks: parameterizing graph optimization by fast local community detection

Proceedings of the Royal Society A

Binh-Minh Bui-Xuan, Nick S. Jones

 

mtDNA Segregation in Heteroplasmic Tissues Is Common In Vivo and Modulated by Haplotype Differences and Developmental Stage (supplement)

Cell Reports BLOG article

Joerg Patrick Burgstaller, Iain G. Johnston, Nick S. Jones, J. Albrechtova, T. Kolbe, C. Vogl, A. Futschik, C. Mayrhofer, D. Klein, S. Sabitzer, M. Blattner, C. Gully, J. Poulton, T. Rulicke, J. Pialek, R. Steinborn, G. Brem

 

Highly comparative, feature-based, time-series classification (supplement)

IEEE Transactions in KDE BLOG article

Ben Fulcher, Nick S. Jones

 

2013:

Highly Comparative Time-Series Analysis: the empirical structure of time series and their methods (super supplement, rest of supplement)

Journal of the Royal Society Interface BLOG article

Ben Fulcher, Max Little, Nick S. Jones

 

Signal Processing and Inference for the Physical Sciences (volume)

Philosophical Transactions of the Royal Society A BLOG article

Editors Nick S. Jones and Thomas J. Maccarone

 

Inference for the Physical Sciences (introduction)

Phil. Trans. R. Soc. A. 371 20120493 BLOG article

Nick S. Jones and Thomas J. Maccarone

 

Signal processing for molecular and cellular biological physics

Phil. Trans. R. Soc. A. 371 20110546

Max Little and Nick S. Jones

 

Function-valued traits in evolution (supplement)

Journal of the Royal Society Interface BLOG article

Pantelis Z. Hadjipantelis, Nick S. Jones, John Moriarty, David Springate, Christopher G. Knight.

 

Evolutionary Inference for Functional Data: Using Gaussian Processes on Phylogenies to Study Shape Evolution (journal version, supplement)

Journal of the Royal Society Interface, 10, 20120616 BLOG article

BLOG Public Experiment

Nick S. Jones, John Moriarty

 

2012:

 

Highly Comparative Fetal Heart Rate Analysis

(conference paper) Engineering in Medicine and Biology Society (EMBC), 2012 Annual International Conference of the IEEE

Ben Fulcher, Alexandra Georgieva, Chris Redman and Nick S. Jones

 

What Evidence is There for the Homology of Protein-Protein Interactions? (supplement)

PLoS Computational Biology 8(9): e1002645 BLOG article

Anna Lewis, Nick S Jones, Mason Porter, Charlotte Deane

 

Advection, diffusion and delivery over a network (supplement)

Phys. Rev. E 86, 021905 BLOG article

Luke L. M. Heaton, Eduardo Lopez, Philip K. Maini, Mark D. Fricker, Nick S. Jones

 

Analysis of fungal networks

Fungal Biology Reviews doi:10.1016/j.fbr.2012.02.001.

Luke L. M. Heaton, Boguslaw Obara, Vincente Grau, Nick S. Jones, Toshi Nakagaki, Lynne Boddy, Mark D. Fricker

 

Taxonomies of Networks from Community Structure (supplement)

Phys. Rev. E 86, 036104 BLOG article

Jukka-Pekka Onnela, Daniel J. Fenn, Stephen Reid, Mason A. Porter, Peter J. Mucha, Mark D. Fricker, Nick S. Jones

 

Mitochondrial Variability as a Source of Extrinsic Cellular Noise (supplement)

PLoS Computational Biology 8(3): e1002416. doi:10.1371/journal.pcbi.1002416 BLOG article

Iain G. Johnston, Bernadett Gaal, Ricardo Pires das Neves, Tariq Enver, Francisco J. Iborra, Nick S. Jones

 

Pulsing of Membrane Potential in Individual Mitochondria: A Stress-Induced Mechanism to Regulate Respiratory Bioenergetics in Arabidopsis
Plant Cell 24, 1188-1201 BLOG article
M. Schwarzlander, D. C. Logan, I. G. Johnston, N. S. Jones, M. D. Fricker and L. J. Sweetlove

 

Dynamical Clustering of Exchange Rates

Quantitative Finance 12, 1493-1520

Daniel J. Fenn, Mason A. Porter, Peter J. Mucha, Mark McDonald, Stacy Williams, Neil F. Johnson, Nick S. Jones

 

2011:
Phylogenetic inference for function-valued traits: speech sound evolution

Trends in Evolution and Ecology (free version and non-free weblink) 27, 160-166 BLOG article

John Aston, Dorothy Buck, John Coleman, Colin Cotter, Nick S. Jones, Vincent Macaulay, Norman Macleod, John Moriarty, Andrew Nevins.

 

Steps and bumps: precision extraction of discrete states of molecular machines using physically-based, high-throughput time series analysis

Biophysical Journal 2, 477 BLOG article

M.A. Little, B.C. Steel, F. Bai, Y. Sowa, T. Bilyard, D.M. Mueller, R.M. Berry, N.S. Jones

 

Generalized methods and solvers for noise removal from piecewise constant signals. I. Background theory

Proceedings of the Royal Society A, 467, 2088 BLOG article

M.A. Little N.S. Jones

 

Generalized methods and solvers for noise removal from piecewise constant signals. II. New Methods

Proceedings of the Royal Society A, 467, 3115 BLOG article

M.A. Little N.S. Jones

 

Temporal evolution of financial-market correlations

Phys. Rev. E 84, 026109 BLOG article

D.J. Fenn, M.A. Porter, S. Williams, M. McDonald, N.F. Johnson and N.S. Jones

 

2010:


Connecting Variability in Global Transcription Rate to Mitochondrial Variability

PLoS Biology 8(12): e1000560 doi:10.1371/journal.pbio.1000560 BLOG article

Ricardo Pires das Neves, Nick S. Jones, Lorena Andreu, Rajeev Gupta,  Tariq Enver, Francisco J. Iborra

 

Growth-induced mass flows in fungal networks

Proceedings of the Royal Society B 277, 3265 BLOG article

Luke Heaton, Eduardo Lopez, Philip K. Maini, Mark D. Fricker, Nick S. Jones

 

Revisiting Date and Party Hubs: Novel Approaches to Role Assignment in Protein Interaction Networks  

PLoS Computational Biology 6(6):e1000817 BLOG article

Sumeet Agarwal, Charlotte M. Deane, Mason A. Porter, Nick S. Jones

 

The Function of Communities in Protein Interaction Networks at Multiple Scales

BMC Systems Biology 4, 100 BLOG article

Anna C. F. Lewis, Nick S. Jones, Mason A. Porter, Charlotte M. Deane


Structural dynamics and robustness of food webs.

Ecology Letters 13, 891 doi: 10.1111/j.1461-0248.2010.01485.x

Phillip P. A. Staniczenko, Owen T. Lewis, Nick S. Jones, Felix Reed-Tsochas  

 

Sparse bayesian step-filtering for high-throughput analysis of molecular machine dynamics

(conference paper) Proceedings IEEE ICASP 2010 p4162

Max A. Little and Nick S. Jones


2009-2008:

Dynamic communities in multichannel data

Chaos 19, 033119 (2009) BLOG article

Daniel J. Fenn, Mason A. Porter, Mark McDonald, Stacy Williams, Neil F. Johnson, Nick S. Jones

 

Master-equation analysis of accelerating networks

Phys. Rev. E 79, 056101 (2009)

David M.D. Smith, Jukka-Pekka Onnela, Nick S. Jones

 

Rapidly detecting disorder in rhythmic biological signals: A spectral entropy measure to identify cardiac arrhythmias

Phys. Rev. E 79, 011915 (2009)

Phillip P. A. Staniczenko, Chiu Fan Lee, Nick S. Jones

 

Using the Memories of Multiscale Machines to Characterize Complex Systems

Phys. Rev. Lett. 100, 208702 (2008)

Nick S. Jones

 

Key Distillation and the Secret-Bit Fraction

IEEE Transactions Information Theory, 54, 680 (2008)

Nick S. Jones and Lluis Masanes

 

Early work:

Photon Frequency Mode Matching using Acousto-Optic Frequency Beam Splitters

Phys. Rev. A 73, 033813 (2006)

Nick S. Jones and T.M. Stace

 

Interconversion of Nonlocal Correlations

Phys. Rev. A 72, 052312 (2005)

Nick S. Jones and Lluis Masanes

 

Mediated Digraphs and Quantum Nonlocality

Discrete Appl. Math. 150, 41 (2005)

Gregory Gutin, Nick S. Jones, Arash Rafiey, Simone Severini, Anders Yeo

 

The Extent of Multi-particle Quantum Non-locality

Physical Review A 71, 042329 (2005)

Nick S. Jones, Noah Linden, Serge Massar

 

Parts of Quantum States

Phys. Rev. A 71, 012324 (2005)

Nick S. Jones and Noah Linden