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Items: 25

1.

Code Generation in Computational Neuroscience: A Review of Tools and Techniques.

Blundell I, Brette R, Cleland TA, Close TG, Coca D, Davison AP, Diaz-Pier S, Fernandez Musoles C, Gleeson P, Goodman DFM, Hines M, Hopkins MW, Kumbhar P, Lester DR, Marin B, Morrison A, Müller E, Nowotny T, Peyser A, Plotnikov D, Richmond P, Rowley A, Rumpe B, Stimberg M, Stokes AB, Tomkins A, Trensch G, Woodman M, Eppler JM.

Front Neuroinform. 2018 Nov 5;12:68. doi: 10.3389/fninf.2018.00068. eCollection 2018. Review.

2.

Arkheia: Data Management and Communication for Open Computational Neuroscience.

Antolík J, Davison AP.

Front Neuroinform. 2018 Mar 5;12:6. doi: 10.3389/fninf.2018.00006. eCollection 2018.

3.

A Commitment to Open Source in Neuroscience.

Gleeson P, Davison AP, Silver RA, Ascoli GA.

Neuron. 2017 Dec 6;96(5):964-965. doi: 10.1016/j.neuron.2017.10.013.

4.

Toward standard practices for sharing computer code and programs in neuroscience.

Eglen SJ, Marwick B, Halchenko YO, Hanke M, Sufi S, Gleeson P, Silver RA, Davison AP, Lanyon L, Abrams M, Wachtler T, Willshaw DJ, Pouzat C, Poline JB.

Nat Neurosci. 2017 May 25;20(6):770-773. doi: 10.1038/nn.4550. No abstract available.

PMID:
28542156
5.

Python in neuroscience.

Muller E, Bednar JA, Diesmann M, Gewaltig MO, Hines M, Davison AP.

Front Neuroinform. 2015 Apr 14;9:11. doi: 10.3389/fninf.2015.00011. eCollection 2015. No abstract available.

6.

Efficient generation of connectivity in neuronal networks from simulator-independent descriptions.

Djurfeldt M, Davison AP, Eppler JM.

Front Neuroinform. 2014 Apr 22;8:43. doi: 10.3389/fninf.2014.00043. eCollection 2014.

7.

libNeuroML and PyLEMS: using Python to combine procedural and declarative modeling approaches in computational neuroscience.

Vella M, Cannon RC, Crook S, Davison AP, Ganapathy G, Robinson HP, Silver RA, Gleeson P.

Front Neuroinform. 2014 Apr 23;8:38. doi: 10.3389/fninf.2014.00038. eCollection 2014.

8.

Neo: an object model for handling electrophysiology data in multiple formats.

Garcia S, Guarino D, Jaillet F, Jennings T, Pröpper R, Rautenberg PL, Rodgers CC, Sobolev A, Wachtler T, Yger P, Davison AP.

Front Neuroinform. 2014 Feb 20;8:10. doi: 10.3389/fninf.2014.00010. eCollection 2014.

9.

Integrated workflows for spiking neuronal network simulations.

Antolík J, Davison AP.

Front Neuroinform. 2013 Dec 10;7:34. doi: 10.3389/fninf.2013.00034. eCollection 2013.

10.

Creating, documenting and sharing network models.

Crook SM, Bednar JA, Berger S, Cannon R, Davison AP, Djurfeldt M, Eppler J, Kriener B, Furber S, Graham B, Plesser HE, Schwabe L, Smith L, Steuber V, van Albada S.

Network. 2012;23(4):131-49. doi: 10.3109/0954898X.2012.722743. Epub 2012 Sep 20. Review.

PMID:
22994683
11.

Collaborative modelling: the future of computational neuroscience?

Davison AP.

Network. 2012;23(4):157-66. doi: 10.3109/0954898X.2012.718482. Epub 2012 Sep 20.

PMID:
22994605
12.

A comprehensive workflow for general-purpose neural modeling with highly configurable neuromorphic hardware systems.

Brüderle D, Petrovici MA, Vogginger B, Ehrlich M, Pfeil T, Millner S, Grübl A, Wendt K, Müller E, Schwartz MO, de Oliveira DH, Jeltsch S, Fieres J, Schilling M, Müller P, Breitwieser O, Petkov V, Muller L, Davison AP, Krishnamurthy P, Kremkow J, Lundqvist M, Muller E, Partzsch J, Scholze S, Zühl L, Mayr C, Destexhe A, Diesmann M, Potjans TC, Lansner A, Schüffny R, Schemmel J, Meier K.

Biol Cybern. 2011 May;104(4-5):263-96. doi: 10.1007/s00422-011-0435-9. Epub 2011 May 27.

PMID:
21618053
13.

NeuroML: a language for describing data driven models of neurons and networks with a high degree of biological detail.

Gleeson P, Crook S, Cannon RC, Hines ML, Billings GO, Farinella M, Morse TM, Davison AP, Ray S, Bhalla US, Barnes SR, Dimitrova YD, Silver RA.

PLoS Comput Biol. 2010 Jun 17;6(6):e1000815. doi: 10.1371/journal.pcbi.1000815.

14.

Reliable recall of spontaneous activity patterns in cortical networks.

Marre O, Yger P, Davison AP, Frégnac Y.

J Neurosci. 2009 Nov 18;29(46):14596-606. doi: 10.1523/JNEUROSCI.0753-09.2009.

15.

NEURON and Python.

Hines ML, Davison AP, Muller E.

Front Neuroinform. 2009 Jan 28;3:1. doi: 10.3389/neuro.11.001.2009. eCollection 2009.

16.

PyNN: A Common Interface for Neuronal Network Simulators.

Davison AP, Brüderle D, Eppler J, Kremkow J, Muller E, Pecevski D, Perrinet L, Yger P.

Front Neuroinform. 2009 Jan 27;2:11. doi: 10.3389/neuro.11.011.2008. eCollection 2008.

17.

Trends in programming languages for neuroscience simulations.

Davison AP, Hines ML, Muller E.

Front Neurosci. 2009 Dec 15;3(3):374-80. doi: 10.3389/neuro.01.036.2009. eCollection 2009.

18.

Simulation of networks of spiking neurons: a review of tools and strategies.

Brette R, Rudolph M, Carnevale T, Hines M, Beeman D, Bower JM, Diesmann M, Morrison A, Goodman PH, Harris FC Jr, Zirpe M, Natschläger T, Pecevski D, Ermentrout B, Djurfeldt M, Lansner A, Rochel O, Vieville T, Muller E, Davison AP, El Boustani S, Destexhe A.

J Comput Neurosci. 2007 Dec;23(3):349-98. Epub 2007 Jul 12. Review.

19.

Learning cross-modal spatial transformations through spike timing-dependent plasticity.

Davison AP, Frégnac Y.

J Neurosci. 2006 May 24;26(21):5604-15.

20.

Biophysical and phenomenological models of multiple spike interactions in spike-timing dependent plasticity.

Badoual M, Zou Q, Davison AP, Rudolph M, Bal T, Frégnac Y, Destexhe A.

Int J Neural Syst. 2006 Apr;16(2):79-97.

PMID:
16688849
21.
22.

ModelDB: making models publicly accessible to support computational neuroscience.

Migliore M, Morse TM, Davison AP, Marenco L, Shepherd GM, Hines ML.

Neuroinformatics. 2003;1(1):135-9. No abstract available.

23.

Dendrodendritic inhibition and simulated odor responses in a detailed olfactory bulb network model.

Davison AP, Feng J, Brown D.

J Neurophysiol. 2003 Sep;90(3):1921-35. Epub 2003 May 7.

24.

A reduced compartmental model of the mitral cell for use in network models of the olfactory bulb.

Davison AP, Feng J, Brown D.

Brain Res Bull. 2000 Mar 15;51(5):393-9.

PMID:
10715559
25.

Separate quantification of doubly and singly 13C-labeled metabolites by HSQC-filtered J spectroscopy.

Davison AP, Jones JA, Dixon RM.

J Magn Reson. 1999 Apr;137(2):448-50.

PMID:
10089181

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