Publications

2015

• Justin W Kenney, Oksana Sorokina, Maja Genheden, Anatoly Sorokin, J Douglas Armstrong, Christopher G Proud (2015) Dynamics of Elongation Factor 2 Kinase Regulation in Cortical Neurons in Response to Synaptic Activity. Journal of Neuroscience 35 3034-3047.

2014

• Kei Ito, Kazunori Shinomiya, Masayoshi Ito, J Douglas Armstrong, George Boyan, Volker Hartenstein, Steffen Harzsch, Martin Heisenberg, Uwe Homberg, Arnim Jenett, Haig Keshishian, Linda L Restifo, Wolfgang Rössler, Julie H Simpson, Nicholas J Strausfeld, Roland Strauss, Leslie B Vosshall (2014) Neuron 81 755-765
• Nick Lowe, Johanna S Rees, John Roote, Ed Ryder, Irina M Armean, Glynnis Johnson, Emma Drummond, Helen Spriggs, Jenny Drummond, Jose P Magbanua, Huw Naylor, Bénédicte Sanson, Rebecca Bastock, Sven Huelsmann, Vitor Trovisco, Matthias Landgraf, Seymour Knowles-Barley, J Douglas Armstrong, Helen White-Cooper, Celia Hansen, Roger G Phillips, Kathryn S Lilley, Steven Russell, Daniel St Johnston (2014) Analysis of the expression patterns, subcellular localisations and interaction partners of Drosophila proteins using a pigP protein trap library. Development 141 3994-4005
• David C Sterratt, Oksana Sorokina, J Douglas Armstrong (2014) Integration of rule-based models and compartmental models of neurons. arXiv preprint arXiv:1411.4980
• Edward W Green, Emma K O’Callaghan, Mirko Pegoraro, J Douglas Armstrong, Rodolfo Costa, Charalambos P Kyriacou (2014) Genetic Analysis of< i> Drosophila Circadian Behavior in Seminatural Conditions. Methods in Enzymology.
• Anatoly Sorokin, Oksana Sorokina, J Douglas Armstrong (2014) RKappa: Statistical sampling suite for Kappa models. arXiv preprint arXiv:1412.4225.

2013

• O Sorokina, A Sorokin, JD Armstrong, V Danos (2013) A simulator for spatially extended kappa models. Bioinformatics 29 (23), 3105
• Laurie D Cohen, Rina Zuchman, Oksana Sorokina, Anke Müller, Daniela C Dieterich, J Douglas Armstrong, Tamar Ziv, Noam E Ziv. (2013) Metabolic Turnover of Synaptic Proteins: Kinetics, Interdependencies and Implications for Synaptic Maintenance. PlosONE 8 (5), e63191
• Balagopal Pai, Taweeporn Siripornmongcolchai, Birgitte Berentsen, Ashraf Pakzad, Christel Vieuille, Ståle Pallesen, Maciej Pajak, T Ian Simpson, J Douglas Armstrong, Karin Wibrand, Clive R Bramham (2013) NMDA receptor-dependent regulation of miRNA expression and association with Argonaute during LTP in vivo. Frontiers in Cellular Neuroscience 7, 285

2012

• Joachim von Eichborn, Mathias Dunkel, Björn O Gohlke, Sarah C Preissner, Michael F Hoffmann, Jakob MJ Bauer, J Douglas Armstrong, Martin H Schaefer, Miguel A Andrade-Navarro, Nicolas Le Novere, Michael DR Croning, Seth GN Grant, Pim van Nierop, August B Smit, Robert Preissner. (2012) SynSysNet: integration of experimental data on synaptic protein–protein interactions with drug-target relations. Nucleic acids research, gks1040
• Shunit Gal-Ben-Ari, Justin W Kenney, Hadile Ounalla-Saad, Elham Taha, Orit David, David Levitan, Iness Gildish, Debabrata Panja, Balagopal Pai, Karin Wibrand, T Ian Simpson, Christopher G Proud, Clive R Bramham, J Douglas Armstrong, Kobi Rosenblum. (2012) Consolidation and translation regulation. Learning and Memory 19 (9), 410-422.
• Wessnitzer J, Young JM, Armstrong JD, Webb B (2012) A model of non-elemental olfactory learning in Drosophila. Journal of computational neuroscience 32 (2), 197-212.
• Osumi-Sutherland D, Reeve S, Mungall CJ, Neuhaus F, Jefferis GSXE, Armstrong JD (in press) A strategy for building neuro-anatomy ontologies. Bioinformatics 28, 1262-1269.
• Armstrong JD, Sorokina O. (2012) Evolution of the cognitive proteome: from static to dynamic network models. Adv Exp Med Biol. 736:119-34.
• Nestor Milyaev, David Osumi-Sutherland, Simon Reeve, Nicholas Burton, Richard A. Baldock, and J. Douglas Armstrong (2012) The Virtual Fly Brain browser and query interface. 28(3): 411-415 doi: 10.1093/bioinformatics/btr677

2011

• Suslak T, Armstrong JD, Jarman AP (2011) A general mathematical model of transduction events in mechano-sensory stretch receptors. Network: Computation in Neural Systems, 22(1-4), 133-142.
• Sorokina O, Sorokin A, Armstrong JD (2011) Towards a quantitative model of the post-synaptic proteome. Mol Biosyst. Oct;7(10):2813-23.
• Gallone G, Simpson TI, Armstrong JD, Jarman AP (2011) Bio::Homology::InterologWalk - A Perl module to build putative protein-protein interaction networks through interolog mapping. BMC Bioinformaitics 12: 289 doi:10.1186/1471-2105-12-289
• Knowles-Barley S, Butcher NJ, Meinertzhagen IA, Amrstrong JD (in press) Biologically inspired EM image alignment and neural reconstruction. Bioinformatics.
• Young JM, Wessnitzer J, Armstrong JD, Webb B (2011) Elemental and non-elemental olfactory learning in Drosophila. Neurobiology of Learning and Memory. 96, 339-352 doi:10.1016/j.nlm.2011.06.009
• Longair MH, Baker DA and Armstrong JD (2011) Simple Neurite Tracer: Open Source software for reconstruction, visualization and analysis of neuronal processes. Bioinformatics. doi: 10.1093/bioinformatics/btr390
• Wessnitzer J, Young JM, Armstrong JD, Webb B (2011) A model of non-elemental olfactory learning in Drosophila. J Computational Neuroscience DOI: 10.1007/s10827-011-0348-6
• Russell C, Wessnitzer J, Young JM, Armstrong JD, Webb B (2011) Dietary salt levels affect salt preference and learning in larval Drosophila. PLoS One, 6(6): e20100. doi:10.1371/ journal.pone.0020100.
• Svensen N, Diaz-Mochon JJ, Dhaliwal K, Dewar M, Armstrong JD, and Bradley M (2011) .Screening of a combinatorial homing peptide library for selective cellular delivery. Angewandte Chemie 50, 6133-6.
• Frank RAW, McRae AF, Pocklington AJ, van de Lagemaat LN, Navarro P, Croning MDR, Komiyama NH, Bradley SJ, Challiss RAJ, Armstrong JD, Finn RD, Malloy MP, MacLean AW, Harris SE, Starr JM, Bhaskar SS, Howard EK, Hunt SE, Coffey AJ, Ranganath V, Deloukas P, Rogers J, Muir WJ, Deary IJ, Blackwood DH, Visscher PM, Grant SGN (2011) Clustered coding variants in the synaptic receptor complexes of individuals with schizophrenia and bipolar disorder. Plos ONE 6,e-19011
• Cachero S, Simpson TI, zur Lage, P, Ma L., Newton F, Holohan E, Armstrong JD, Jarman AP. (2011) The gene regulatory cascade linking proneural specification with differentiation in Drosophila sensory neurons. PlosBiology 9(1): e1000568

2010

• Simpson TI, Armstrong JD, Jarman AP (2010) Merged consensus clustering to assess and improve class discovery with microarray data. BMC Bioinformatics 11:590
• Knowles-Barkey S, Longair M, Armstrong JD (2010) BrainTrap: a database of 3D protein expression patterns in the Drosophila brain. Database DOI:10.1093/database/baq005
• Sheward WJ, Naylor E, Knowles-Barley S, Armstrong JD, Brooker GA, Seckl JR, Turek FW, Holmes MC, Zee PC, Harmar AJ. (2010) Circadian control of mouse heart rate and blood pressure by the suprachiasmatic nuclei: behavioral effects are more significant than direct outputs. PLOS One Mar 22;5(3):e9783
• Young JM, Armstrong JD (2010) Building the central complex in Drosophila: the generation and development of distinct neural subsets. J Comp Neurol. 2010 May 1;518(9):1525-41.
• Young JM, Armstrong JD (2010) Structure of the adult central complex in Drosophila: organization of distinct neuronal subsets. J Comp Neurol. 2010 May 1;518(9):1500-24.
• R.R. Sillito, T.C. Lukins, and J.D. Armstrong. (2010) Improved rodent contour extraction using a priori shape information. In Workshop on the Visual Observation and Analysis of Animal and Insect Behavior (held at ICPR’10), Istanbul, Turkey

2009

• Krashes MJ, DasGupta S, Vreede A, White B, Armstrong JD, Waddell S. (2009) A neural circuit mechanism integrating motivational state with memory expression in Drosophila. Cell. 2009 Oct 16;139(2):416-27.
• Fernandez E, Collins MO, Uren RT, Kopanitsa MV, Komiyama NH, Croning MDR, Zografos L, Armstrong JD, Choudhary JS & Grant SGN (2009) Targeted tandem affinity purification of PSD-95 recovers core postsynaptic complexes and schizophrenia susceptibility proteins. Nature Molecular Systems Biology 5:269 doi:10.1038/msb.2009.27
• Armstrong JD, van Hemert JI (2009) Towards a virtual fly brain. Phil Trans R Soc A 367, 2387-2397. doi: 10.1098/rsta.2008.0308
• Croning MDR, Marshall MC, McLaren P, Armstrong JD and Grant SGN (2009). G2Cdb: the genes 2 cognition database. Nucleic Acids Research. 37: D16-D18; doi:10.1093/nar/gkn724

2008

• Emes RD, Pocklington AJ, Anderson CN, Bayes A, Collins MO, Vickers CA, Croning MD, Malik BR, Choudhary JS, Armstrong JD, Grant SG. (2008) Evolutionary expansion and anatomical specialization of synapse proteome complexity. Nat Neurosci 11:799-806 (epub) DOI: 10.1038/nn.2135
• M.A. Dewar, T.C. Lukins, J.A. Heward, and J.D. Armstrong. (2008) Classification of animal behaviour using dynamic models of movement. In Workshop on Stochastic Models of Behaviour (held at NIPS’08), Whistler, Canada
• T.C. Lukins, M.A. Dewar, J.A. Heward, and J.D. Armstrong. (2008) Extracting drosophila courtship behaviour statistics from video. In Workshop on the Visual Observation and Analysis of Animal and Insect Behavior (held at ICPR’08), Tampa, USA
• P. A. Crook, T. C. Lukins, J. A. Heward, and J. D. Armstrong. Identifying semi-invariant features on mouse contours. In Proc. British Machine Vision Conference (BMVC), 2008.

2007

• Ivakhno S, Armstrong JD (2007) Non-linear dimensionality reduction of signaling networks. BMC Systems Biology 1:27.pdf
• Baker DA, Beckingham KM, Armstrong JD (2007) Functional dissection of the neural substrates for Gravitaxic Maze Behaviour in Drosophila melanogaster. J Comp Neurol. 501: 756-64
• Krashes MJ, Keene AC, Leung B, Armstrong JD, Waddell S (2007) Sequential use of mushroom body neuron subsets during Drosophila odor memory processing. Neuron 53, 103-115.

2006

• Armstrong JD, Pocklington AJ, Cumiskey MA, Grant SGN. (2006) Reconstructing protein complexes: from proteomics to systems biology. Proteomics 6, 4724 - 4731. 10.1002/pmic.200500895.
• Pocklington AJ, Armstrong JD and Grant SGN (2006) Organisation of brain complexity - synapse proteome form and function. Briefings in Functional Genomics and Proteomics. 5: 66-73; doi:10.1093/bfgp/ell013 abstract
• Armstrong JD, Texada MJ, Munjal R, Baker DA and Beckingham KM. (2006) Gravitaxis in Drosophila melanogaster: A forward genetic screen. Genes, Brain and Behavior. 5: 222. doi: 10.1111/j.1601-183X. 2005.00154.x
• Pocklington AJ, Cumiskey M, Armstrong JD, Grant SGN (2006) The proteomes of neurotransmitter receptor complexes form modular networks with distributed functionality underlying plasticity and behaviour.
• Molecular Systems Biology, 2, msb4100041-E1 -E14.

2005

• SGN Grant, MC Marshall, K-L Page, MA Cumiskey, JD Armstrong. (2005) Systematic curation of human mutations and diseases in NMDA receptor multiprotein complex genes. Human Molecular Genetics. 14: R225-34.
• JD Armstrong, DA Baker, JE Heward and T Lukins. (2005) Sex, Flies and no Videotape. Proceedings of Measuring Behavior 2005, 5th International Conference on Methods and Techniques in behavioral Research (Wageningen, The Netherlands, 30 August - 2 September 2005). Edited by LPJJ Noldus, F Grieco, LWS Loijens and PH Zimmerman. Wageningen: Noldus Information Technology, 290-293.
• JA Heward, DA Baker, TC Lukins and JD Armstrong. (2005) flyTracker: real-time analysis of insect courtship. Proceedings of Measuring Behavior 2005, 5th International Conference on Methods and Techniques in behavioral Research (Wageningen, The Netherlands, 30 August - 2 September 2005). Edited by LPJJ Noldus, F Grieco, LWS Loijens and PH Zimmerman. Wageningen: Noldus Information Technology, 409-410.
• Beckingham KM, Texada MJ, Baker DA, Munjal R, and Armstrong JD (2005) Genetics of Graviperception in Animals. Advances in Genetics. 55: 105-45.
• Beckingham KM, Armstrong JD, Texada MJ, Munjal R and Baker DA (2005) Drosophila melanogaster: The model organism of choice for the complex biology of multicellular organisms. ASGSB Bulletin. 18: 17-29.
• Carhan A, Allen F, Armstrong JD, Goodwin SF and O'Dell KMC. (2005) The female receptivity phenotype of icebox mutants is caused by a mutation in the L1-CAM neuroglian. Genes Brain and Behavior. 4: 449-65 doi:10.1111/j.1601-183X. 2004.00117.x

2004

• Armstrong JD and Goodwin SF. Genetic systems and the study of neuronal function - Drosophila (2004) In Davies RW and Morris B (Eds) Molecular Biology of the Neuron OUP OUP:ISBN:0-19-850998-7
• Chiang AS, Blum A, Barditch J, Chen YH, Chiu SL, Regulski M, Armstrong JD, Tully T, Dubnau J. (2004) radish encodes a phospholipase-A2 and defines a neural circuit involved in anesthesia-resistant memory. Curr Biol. 17 pp 263-72. PMID:14972677

2003

• Armstrong JD, Goddard N and Shepherd D (2003) Neuroinformatics in Model Organisms. J. Neurogenetics, 17, pp103-116 PMID:14668196
• Cumiskey M, Levine J, & Armstrong JD. (2003) Gene Network Reconstruction Using a Distributed Genetic Algorithm with a Backprop Local Search. EvoWorkshop 33-43. SpringerLink
• S.G.N. Grant, H. Husi, J. Choudhary, M. Cumiskey, W. Blackstock and J.D. Armstrong (2003) The Organization and integrative function of the post-synaptic proteome. In Hensch TK and Fagiolin M (Eds) Excitatory-Inhibitory Balance: Synapses, Circuits, Systems. Kluwer Academic/Plenum Publishers, New York kluwer:ISBN:0-306-47962-1

2001

• P. Rosay, J. D. Armstrong, Z. Wang and K. Kaiser (2001). Amnesiac Regulates Synchronised Neural Activity in the Drosophila Memory Centres.Neuron 30, pp 759-70PMID:11430809

2000

• X. An, J. D. Armstrong, K. Kaiser and K. M. C. O'Dell (2000). The effects of ectopic white and transformer expression of Drosophila courtship behaviour.J. Neurogenetics 14, pp 227-243.PMID:11342383
• S. Waddell, J. D. Armstrong, T. Kitamoto, K. Kaiser and W. G. Quinn (2000). The amnesiac gene product is expressed in two neurons in the Drosophila brain that are critical for memory. Cell. 103, pp 805-13. PMID:11114336

1999

• P. Rosay, K. Kaiser and J. D. Armstrong (1999) A novel approach to Drosophila neurophysiology: the targetted expression of aequorin. In W. E. Cruisio and R. T. Gerlai (Eds.) Handbook of molecular-genetic techniques for brain and behavior research.Elsevier:ISBN:0444502394
• S. C .P. Renn, J. D. Armstrong, M. -Y. Yang, Z. Wang, J. Clark, X. An, K. Kaiser, and P. H. Taghert. (1999) Developmental Anatomy of the Central Complex in Drosophila melanogaster: J. Neurosci . 5, pp 189-207 PMID:10512977

1998

• J. D. Armstrong, J. S. deBelle, Z. Wang and K. Kaiser (1998) Metamorphosis of the mushroom bodies; large scale rearrangements of the neural substrates for associative learning and memory in Drosophila. Learning and Memory 5, pp 102-114

1997

• J. D. Armstrong and K. Kaiser (1997). The Study of Drosophila Brain Development. (1997) In L. M. Houdebine (Ed.), Transgenic animals - generation and use. Harwood Academic Publishers..pp 365-370.
• M. A. Sozen, J. D. Armstrong, M.Y. Yang, K.Kaiser and J.A.T. Dow (1997). Functional domains are specified to single-cell resolution in a Drosophila epithelium. P.N.A.S 94, pp 5207-5212
• M. Tettamanti, J. D. Armstrong, K. Endo, M. Y. Yang, K. Furukubo-Tokunaga, K. Kaiser and H. Reichert (1997). Early Development of the Drosophila Mushroom Bodies, Brain Centres for Associative Learning and Memory. Dev. Genes Evol. 207, pp 242-252.

1996

• J. B. Connolly, I. J. Roberts, J. D. Armstrong, K. Kaiser, M. Forte, T. Tully and C. J, O'Kane (1996). Associative Learning and Memory is Mediated by Gs Signalling in Drosophila Mushroom Bodies. Science, 274, pp 2104-2107.

1995

• J. D. Armstrong, K. Kaiser, A. Muller,K.-F. Fischbach, N. Merchant and N. J. Strausfeld (1995). Flybrain - an atlas and database of the Drosophila nervous system. Neuron, 15, pp 17-20.
• M. -Y. Yang, J. D. Armstrong, I. Vilinsky, N. J. Strausfeld and K. Kaiser (1995). Subdivision of the Drosophila mushroom bodies by enhancer-trap expression patterns. Neuron, 15, pp 45-54.
• K. M. C. O'Dell, J. D. Armstrong, M. Y. Yang and K. Kaiser (1995). Functional dissection of the Drosophila mushroom bodies by selective feminisation of genetically defined sub-compartments. Neuron 15, pp 55-61