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Bayesian inference of origin firing time distributions, origin interference and licencing probabilities from Next Generation Sequencing data.

Bazarova A, Nieduszynski CA, Akerman I, Burroughs NJ.

Nucleic Acids Res. 2019 Mar 18;47(5):2229-2243. doi: 10.1093/nar/gkz094.


Actin turnover ensures uniform tension distribution during cytokinetic actomyosin ring contraction.

Cheffings TH, Burroughs NJ, Balasubramanian MK.

Mol Biol Cell. 2019 Apr 1;30(8):933-941. doi: 10.1091/mbc.E18-08-0511. Epub 2019 Feb 13.


A Hidden Markov Model for Detecting Confinement in Single-Particle Tracking Trajectories.

Slator PJ, Burroughs NJ.

Biophys J. 2018 Nov 6;115(9):1741-1754. doi: 10.1016/j.bpj.2018.09.005. Epub 2018 Sep 13.


Kinesin expands and stabilizes the GDP-microtubule lattice.

Peet DR, Burroughs NJ, Cross RA.

Nat Nanotechnol. 2018 May;13(5):386-391. doi: 10.1038/s41565-018-0084-4. Epub 2018 Mar 12.


Changes in Gene Expression in Space and Time Orchestrate Environmentally Mediated Shaping of Root Architecture.

Walker L, Boddington C, Jenkins D, Wang Y, Grønlund JT, Hulsmans J, Kumar S, Patel D, Moore JD, Carter A, Samavedam S, Bonomo G, Hersh DS, Coruzzi GM, Burroughs NJ, Gifford ML.

Plant Cell. 2017 Oct;29(10):2393-2412. doi: 10.1105/tpc.16.00961. Epub 2017 Sep 11.


Size matters for single-cell C4 photosynthesis in Bienertia.

Jurić I, González-Pérez V, Hibberd JM, Edwards G, Burroughs NJ.

J Exp Bot. 2017 Jan;68(2):255-267. doi: 10.1093/jxb/erw374. Epub 2016 Oct 12.


Human kinetochores are swivel joints that mediate microtubule attachments.

Smith CA, McAinsh AD, Burroughs NJ.

Elife. 2016 Sep 3;5. pii: e16159. doi: 10.7554/eLife.16159.


Actomyosin Ring Formation and Tension Generation in Eukaryotic Cytokinesis.

Cheffings TH, Burroughs NJ, Balasubramanian MK.

Curr Biol. 2016 Aug 8;26(15):R719-R737. doi: 10.1016/j.cub.2016.06.071. Review.


Regulation of Gene Expression in Shewanella oneidensis MR-1 during Electron Acceptor Limitation and Bacterial Nanowire Formation.

Barchinger SE, Pirbadian S, Sambles C, Baker CS, Leung KM, Burroughs NJ, El-Naggar MY, Golbeck JH.

Appl Environ Microbiol. 2016 Aug 15;82(17):5428-43. doi: 10.1128/AEM.01615-16. Print 2016 Sep 1.


KiT: a MATLAB package for kinetochore tracking.

Armond JW, Vladimirou E, McAinsh AD, Burroughs NJ.

Bioinformatics. 2016 Jun 15;32(12):1917-9. doi: 10.1093/bioinformatics/btw087. Epub 2016 Feb 15.


Inferring the Forces Controlling Metaphase Kinetochore Oscillations by Reverse Engineering System Dynamics.

Armond JW, Harry EF, McAinsh AD, Burroughs NJ.

PLoS Comput Biol. 2015 Nov 30;11(11):e1004607. doi: 10.1371/journal.pcbi.1004607. eCollection 2015 Nov.


Detection of Diffusion Heterogeneity in Single Particle Tracking Trajectories Using a Hidden Markov Model with Measurement Noise Propagation.

Slator PJ, Cairo CW, Burroughs NJ.

PLoS One. 2015 Oct 16;10(10):e0140759. doi: 10.1371/journal.pone.0140759. eCollection 2015.


Super-resolution kinetochore tracking reveals the mechanisms of human sister kinetochore directional switching.

Burroughs NJ, Harry EF, McAinsh AD.

Elife. 2015 Oct 13;4. pii: e09500. doi: 10.7554/eLife.09500.


Solar powered biohydrogen production requires specific localization of the hydrogenase.

Burroughs NJ, Boehm M, Eckert C, Mastroianni G, Spence EM, Yu J, Nixon PJ, Appel J, Mullineaux CW, Bryan SJ.

Energy Environ Sci. 2014 Oct 15;7(11):3791-3800. Epub 2014 Sep 23.


Probing microtubule polymerisation state at single kinetochores during metaphase chromosome motion.

Armond JW, Vladimirou E, Erent M, McAinsh AD, Burroughs NJ.

J Cell Sci. 2015 May 15;128(10):1991-2001. doi: 10.1242/jcs.168682. Epub 2015 Apr 23.


Sub-cellular location of FtsH proteases in the cyanobacterium Synechocystis sp. PCC 6803 suggests localised PSII repair zones in the thylakoid membranes.

Sacharz J, Bryan SJ, Yu J, Burroughs NJ, Spence EM, Nixon PJ, Mullineaux CW.

Mol Microbiol. 2015 May;96(3):448-62. doi: 10.1111/mmi.12940. Epub 2015 Feb 11.


Error correction and diversity analysis of population mixtures determined by NGS.

Wood GR, Burroughs NJ, Evans DJ, Ryabov EV.

PeerJ. 2014 Nov 13;2:e645. doi: 10.7717/peerj.645. eCollection 2014.


Localisation and interactions of the Vipp1 protein in cyanobacteria.

Bryan SJ, Burroughs NJ, Shevela D, Yu J, Rupprecht E, Liu LN, Mastroianni G, Xue Q, Llorente-Garcia I, Leake MC, Eichacker LA, Schneider D, Nixon PJ, Mullineaux CW.

Mol Microbiol. 2014 Oct 13. doi: 10.1111/mmi.12826. [Epub ahead of print]


Correcting for link loss in causal network inference caused by regulator interference.

Wang Y, Penfold CA, Hodgson DA, Gifford ML, Burroughs NJ.

Bioinformatics. 2014 Oct;30(19):2779-86. doi: 10.1093/bioinformatics/btu388. Epub 2014 Jun 19.


Transcriptomic studies of phosphate control of primary and secondary metabolism in Streptomyces coelicolor.

Martín JF, Santos-Beneit F, Rodríguez-García A, Sola-Landa A, Smith MC, Ellingsen TE, Nieselt K, Burroughs NJ, Wellington EM.

Appl Microbiol Biotechnol. 2012 Jul;95(1):61-75. doi: 10.1007/s00253-012-4129-6. Epub 2012 May 24. Review.


Extracting regulator activity profiles by integration of de novo motifs and expression data: characterizing key regulators of nutrient depletion responses in Streptomyces coelicolor.

Iqbal M, Mast Y, Amin R, Hodgson DA; STREAM Consortium, Wohlleben W, Burroughs NJ.

Nucleic Acids Res. 2012 Jul;40(12):5227-39. doi: 10.1093/nar/gks205. Epub 2012 Mar 9.


Metabolic switches and adaptations deduced from the proteomes of Streptomyces coelicolor wild type and phoP mutant grown in batch culture.

Thomas L, Hodgson DA, Wentzel A, Nieselt K, Ellingsen TE, Moore J, Morrissey ER, Legaie R; STREAM Consortium, Wohlleben W, Rodríguez-García A, Martín JF, Burroughs NJ, Wellington EM, Smith MC.

Mol Cell Proteomics. 2012 Feb;11(2):M111.013797. doi: 10.1074/mcp.M111.013797. Epub 2011 Dec 6.


Boltzmann energy-based image analysis demonstrates that extracellular domain size differences explain protein segregation at immune synapses.

Burroughs NJ, Köhler K, Miloserdov V, Dustin ML, van der Merwe PA, Davis DM.

PLoS Comput Biol. 2011 Aug;7(8):e1002076. doi: 10.1371/journal.pcbi.1002076. Epub 2011 Aug 4.


Semi-automated Acanthamoeba polyphaga detection and computation of Salmonella typhimurium concentration in spatio-temporal images.

Tsibidis GD, Burroughs NJ, Gaze W, Wellington EM.

Micron. 2011 Dec;42(8):911-20. doi: 10.1016/j.micron.2011.06.010. Epub 2011 Jul 1.


Loss of the SPHF homologue Slr1768 leads to a catastrophic failure in the maintenance of thylakoid membranes in Synechocystis sp. PCC 6803.

Bryan SJ, Burroughs NJ, Evered C, Sacharz J, Nenninger A, Mullineaux CW, Spence EM.

PLoS One. 2011;6(5):e19625. doi: 10.1371/journal.pone.0019625. Epub 2011 May 23.


Inferring the time-invariant topology of a nonlinear sparse gene regulatory network using fully Bayesian spline autoregression.

Morrissey ER, Juárez MA, Denby KJ, Burroughs NJ.

Biostatistics. 2011 Oct;12(4):682-94. doi: 10.1093/biostatistics/kxr009. Epub 2011 May 5.


Matched sizes of activating and inhibitory receptor/ligand pairs are required for optimal signal integration by human natural killer cells.

Köhler K, Xiong S, Brzostek J, Mehrabi M, Eissmann P, Harrison A, Cordoba SP, Oddos S, Miloserdov V, Gould K, Burroughs NJ, van der Merwe PA, Davis DM.

PLoS One. 2010 Nov 5;5(11):e15374. doi: 10.1371/journal.pone.0015374.


Dynamics of immunological models.

Pinto AA, Burroughs NJ, Ferreira M, Oliveira BM.

Acta Biotheor. 2010 Dec;58(4):391-404. doi: 10.1007/s10441-010-9117-6. Epub 2010 Aug 4.


On reverse engineering of gene interaction networks using time course data with repeated measurements.

Morrissey ER, Juárez MA, Denby KJ, Burroughs NJ.

Bioinformatics. 2010 Sep 15;26(18):2305-12. doi: 10.1093/bioinformatics/btq421. Epub 2010 Jul 16.


An improved strip FRAP method for estimating diffusion coefficients: correcting for the degree of photobleaching.

Yang J, Köhler K, Davis DM, Burroughs NJ.

J Microsc. 2010 Jun 1;238(3):240-53. doi: 10.1111/j.1365-2818.2009.03347.x.


The dynamic architecture of the metabolic switch in Streptomyces coelicolor.

Nieselt K, Battke F, Herbig A, Bruheim P, Wentzel A, Jakobsen ØM, Sletta H, Alam MT, Merlo ME, Moore J, Omara WA, Morrissey ER, Juarez-Hermosillo MA, Rodríguez-García A, Nentwich M, Thomas L, Iqbal M, Legaie R, Gaze WH, Challis GL, Jansen RC, Dijkhuizen L, Rand DA, Wild DL, Bonin M, Reuther J, Wohlleben W, Smith MC, Burroughs NJ, Martín JF, Hodgson DA, Takano E, Breitling R, Ellingsen TE, Wellington EM.

BMC Genomics. 2010 Jan 6;11:10. doi: 10.1186/1471-2164-11-10.


Transformation from spots to waves in a model of actin pattern formation.

Whitelam S, Bretschneider T, Burroughs NJ.

Phys Rev Lett. 2009 May 15;102(19):198103. Epub 2009 May 13.


Evidence for the intense exchange of MazG in marine cyanophages by horizontal gene transfer.

Bryan MJ, Burroughs NJ, Spence EM, Clokie MR, Mann NH, Bryan SJ.

PLoS One. 2008 Apr 23;3(4):e2048. doi: 10.1371/journal.pone.0002048.


Nonequilibrium-driven motion in actin networks: comet tails and moving beads.

Burroughs NJ, Marenduzzo D.

Phys Rev Lett. 2007 Jun 8;98(23):238302. Epub 2007 Jun 5.


Stochasticity and spatial heterogeneity in T-cell activation.

Burroughs NJ, van der Merwe PA.

Immunol Rev. 2007 Apr;216:69-80. Review.


A Markov chain Monte Carlo method for estimating population mixing using Y-chromosome markers: mixing of the Han people in China.

Jow H, Amos W, Luo H, Zhang Y, Burroughs NJ.

Ann Hum Genet. 2007 May;71(Pt 3):407-20. Epub 2006 Dec 5.


T-cell activation: A queuing theory analysis at low agonist density.

Wedagedera JR, Burroughs NJ.

Biophys J. 2006 Sep 1;91(5):1604-18. Epub 2006 Jun 9.


Ligand detection and discrimination by spatial relocalization: A kinase-phosphatase segregation model of TCR activation.

Burroughs NJ, Lazic Z, van der Merwe PA.

Biophys J. 2006 Sep 1;91(5):1619-29. Epub 2006 Jun 2.


Regulatory T cell adjustment of quorum growth thresholds and the control of local immune responses.

Burroughs NJ, Miguel Paz Mendes de Oliveira B, Adrego Pinto A.

J Theor Biol. 2006 Jul 7;241(1):134-41. Epub 2006 Jan 5.


Three-dimensional dynamic Monte Carlo simulations of elastic actin-like ratchets.

Burroughs NJ, Marenduzzo D.

J Chem Phys. 2005 Nov 1;123(17):174908.


Discriminating self from nonself with short peptides from large proteomes.

Burroughs NJ, de Boer RJ, Keşmir C.

Immunogenetics. 2004 Aug;56(5):311-20. Epub 2004 Jul 30.


Quantifying the strength of ligand antagonism in TCR triggering.

Van Den Berg HA, Burroughs NJ, Rand DA.

Bull Math Biol. 2002 Jul;64(4):781-808.


TCR dynamics on the surface of living T cells.

Favier B, Burroughs NJ, Wedderburn L, Valitutti S.

Int Immunol. 2001 Dec;13(12):1525-32.


Stability of a diverse immunological memory is determined by T cell population dynamics.

Utzny C, Burroughs NJ.

Bull Math Biol. 2001 Jul;63(4):685-713.


Long-term stability of diverse immunological memory.

Utzny C, Burroughs NJ.

J Theor Biol. 2001 Aug 21;211(4):393-402.


A reliable and safe T cell repertoire based on low-affinity T cell receptors.

Van Den Berg HA, Rand DA, Burroughs NJ.

J Theor Biol. 2001 Apr 21;209(4):465-86.


Mathematical analysis of growth and interaction dynamics of streptomycetes and a bacteriophage in soil.

Burroughs NJ, Marsh P, Wellington EM.

Appl Environ Microbiol. 2000 Sep;66(9):3868-77.


Markov chain Monte Carlo analysis of human Y-chromosome microsatellites provides evidence of biased mutation.

Cooper G, Burroughs NJ, Rand DA, Rubinsztein DC, Amos W.

Proc Natl Acad Sci U S A. 1999 Oct 12;96(21):11916-21.

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