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CF Neuroscience programme

Publications

Zachary Mainen

Peer-reviewed publications

1. Brown TH, Mainen ZF, Zador AM, Claiborne BJ (1991) Self-organization and non-linear processing in hippocampal neurons. In: Advances in neural information processing systems 3 (Lippman RP, Moody JE, Touretzky DS, eds), pp 39-45. San Mateo, CA: Morgan Kaufmann.
2. Destexhe A, Mainen ZF, Sejnowski TJ (1994) Synthesis of models for excitable membranes, synaptic transmission, and neuromodulation using a common kinetic framework.  J Computational Neurosci 1, 195-230. 
3. Destexhe A, Mainen ZF, Sejnowski TJ (1994) An efficient method for computing synaptic conductances based on a kinetic model of receptor binding. Neural Computation 6, 14-18.
4. Mainen ZF, Sejnowski TJ (1995) Reliability of spike timing in neocortical neurons.Science 268, 1503-1506.
5. Mainen ZF, Joerges J, Huguenard JR and Sejnowski TJ (1995) A model of spike initiation in neocortical pyramidal neurons. Neuron 15, 1427-1439.
6. Mainen ZF, Sejnowski TJ (1996) Influence of dendritic structure on firing pattern in model neocortical neurons. Nature 382, 363-366.
7. Mainen ZF, Carnevale NT, Zador AM, Claiborne BJ, Brown TH (1996) Electrotonic architecture of hippocampal CA1 pyramidal neurons based on three-dimensional reconstructions. J Neurophysiol, 76, 1904-1923.
8. Malinow R, Mainen ZF (1996) Long-term potentiation in the CA1 hippocampus [technical comment]. Science 271, 1604-1606. 
9. Malinow R, Mainen ZF (1996) Long-term potentiation in the CA1 hippocampus. Science 271, 1604-1606.
10. Mainen ZF, Jia Z, Roder J, Malinow R (1998) Use-dependent AMPA receptor block in mice lacking GluR2 suggests postsynaptic site for LTP expression. Nature Neurosci, 1, 579-586.
11. Mainen ZF, Maletic-Savatic M, Shi SH, Hayashi Y, Malinow R, Svoboda K (1999) Two-photon imaging in brain slices. Methods 18, 231-239.
12. Mainen ZF, Malinow R, Svoboda K (1999) Synaptic calcium transients in single spines indicate that NMDA receptors are not saturated. Nature 399, 151-55.
13. Svoboda K, Mainen ZF (1999). Synaptic calcium: Intracellular stores spill their guts.Neuron 22, 427-430.
14. Mainen ZF (2000). Thinking about feeling. Nature Neurosci 3, 857.
15. Malinow R, Mainen ZF, Hayashi Y (2000) LTP mechanisms: from silence to four-lane traffic. Curr Opin Neurobiol 10, 352-357.
16. Maravall M, Mainen ZF, Sabatini BL, Svoboda K (2000) Estimating intracellular calcium concentrations and buffering without wavelength ratioing. Biophys J 78, 2655-2667
17. Egger V, Svoboda K, Mainen ZF (2003) Mechanisms of lateral inhibition in the olfactory bulb: efficiency and modulation of spike-evoked calcium influx into granule cells. J Neurosci 23, 7551-8. 
18. Uchida N, Mainen ZF (2003) Speed and accuracy of olfactory discrimination in the rat.Nature Neurosci 6, 1224-1229.
19. Egger V, Svoboda K, Mainen ZF (2005) Dendrodendritic synaptic signals in olfactory bulb granule cells: local spine boost and global low-threshold spike. J Neurosci 25, 3521-30.
20. Uchida N, Kepecs A, Mainen ZF (2006) Seeing at a glance: Limits on temporal integration in perception. Nature Rev Neurosci, 7:485-491.
21. Feierstein CE, Quirk MC, Uchida N, Sosulski DL, Mainen ZF (2006) Spatial goal representations in orbitofrontal cortex. Neuron, 51:495-507.
22. Gurden H, Uchida N, Mainen ZF (2006) Sensory-evoked intrinsic optical signals in the olfactory bulb are coupled to glutamate release and uptake. Neuron, 52:335-345.
23. Kepecs AC, Uchida N, Mainen ZF (2007) Rapid and precise control of sniffing during olfactory discrimination in rats. J Neurophys, in press.
24. Sato TR, Gray NW, Mainen ZF, Svoboda K (2007) The functional microarchitecture of the mouse barrel cortex. PLoS Biology, in press.

Reviews

1. Kepecs A, Uchida N, Mainen ZF (2006) The sniff as a unit of olfactory processing. Chem Senses 31, 167-79.
2. Wilson R, Mainen ZF (2006) Early events in olfactory processing. Annu Rev Neurosci,29:163-201.
3. Mainen ZF (2006) Behavioral analysis of olfactory coding and computation in rodents.Curr Opin Neurobiol, 16: 429-423.

Book chapters

1. Kairiss EW, Mainen ZF, Claiborne BJ, Brown TH (1992) Dendritic control of hebbian computations.  In: Analysis and Modeling of Neural Systems (Eeckman FH, ed).  Boston: Kluwer Academic Publishers.
2. Brown TH, Zador AM, Mainen ZF, Claiborne BJ (1992) Computational models of the principal classes of hippocampal neurons.  In: Single Neuron Computation (McKenna T, Davis J, Zornetzer SF, eds), pp 61-80. New York: Academic Press.
3. Destexhe A, Mainen ZF, Sejnowski TJ (1995) Synaptic currents, neuromodulation and kinetic models.  In: The Handbook of Brain Theory and Neural Networks (Arbib M, ed), pp 956-959. Cambridge, MA: MIT Press.
4. Destexhe A, Mainen ZF, Sejnowski TJ (1995) Elementary kinetics provide efficient models of synaptic transmission and neuromodulation. In: The Neurobiology of Computation (Bower J, ed), pp 9-14.  Norwell, MA: Kluwer Academic Press.
5. Destexhe A, Mainen ZF, Sejnowski TJ (1998) Kinetic models of synaptic transmission.In: Methods in Neuronal Modeling, 2nd Ed. (Koch C, Segev I, eds), pp 1-26. Cambridge,MA: MIT Press.
6. Mainen ZF, and Sejnowski TJ (1998) Modeling active dendritic processes in pyramidal neurons. In: Methods in Neuronal Modeling, 2nd Ed. (Koch C, Segev I, eds), pp 171-210. Cambridge, MA: MIT Press.
7. Mainen ZF (1999) Functional plasticity at dendritic synapses. In: Dendrites (Stuart G, Spruston N, Häusser M, eds). Oxford: Oxford University Press, pp 310-338.
8. Mainen ZF and Abbott LF (2007) Functional plasticity at dendritic synapses. In: Dendrites, 2nD Ed. (Stuart G, Spruston N, Häusser M, eds). Oxford: Oxford UniversityPress, in press.

Published Conference Proceedings

1. Mainen ZF, Zador AM, Claiborne BJ, Brown TH (1990) Hebbian synapses induce feature mosaics in hippocampal dendrites. Soc Neurosci Abstr 16, 492.
2. Mainen ZF, Claiborne BJ, Brown TH (1991) Evolution of feature clusters in hippocampal dendrites.  Proceedings of American Inst. Physics: Neural Networks for Computing, Snowbird, Utah.
3. Mainen ZF, Claiborne BJ, Brown TH (1991) A novel role for synaptic competition in the development of cortical lamination. Soc Neurosci Abstr 17, 759.
4. Tsodyks M, Bell, AJ, Mainen ZF, Sejnowski, TJ (1994) Why do cortical neurons spike irregularly? Soc Neurosci Abstr 20, 1527.
5. Mainen ZF, Sejnowski TJ (1994) Reliability of spike initiation in neocortex.  Soc Neurosci Abstr 20, 1527.
6. Huguenard JR, Joerges J, Mainen ZF, Sejnowski TJ. (1994) Functional role of axon hillock and initial segment in cortical spike initiation. Soc Neurosci Abstr 20, 1527.
7. Mainen ZF, Sejnowski TJ (1995) Minimal models of spike encoding by neocortical neurons.  Soc Neurosci Abstr 21, 584.
8. Mainen ZF, Malinow R (1996) Kinetics of NMDA receptor activation by caged glutamate in the hippocampal slice: Constraining functional synaptic geometry. Soc Neurosci Abstr 22, 515.
9. Mainen ZF, Roder J, Malinow R (1997) Measurement of release probability by use-dependent block of AMPA-R mediated synaptic transmission in GluR2 knockout mice. SocNeurosci Abstr 23, 1941. 
10. Mainen ZF, Malinow R, Svoboda K (1998) Optical quantal analysis. Soc Neurosci Abstr 24, 325.
11. Mainen ZF, Macknik SL, Gasperini R (2000) Odor-evoked optical signals in rat and mouse olfactory bulb: relating neural activity and perception. Soc Neurosci Abstr, 26,552.13.
12. Uchida N, Macknik S, Mainen ZF (2001) Psychophysical measurement of odor quality perception in rodents using a two-alternative choice task with odor mixtures. Soc Neurosci Abstr 27, 458.11.
13. TG Oertner, BS Sabatini, ZF Mainen, K Svoboda (2001) Dissecting mechanisms of paired-pulse facilitation at single synapses in rat hippocampal slices. Soc Neurosci Abstr 27, 384.4.
14. Egger V, Mainen ZF (2001) Action potential-evoked calcium transients in rat olfactory bulb granule cell dendrites in vitro. Soc Neurosci Abstr 27, 727.5.
15. Caporale N, Mehta N, Mainen ZF (2001) Natural and non-natural volatile olfactory cues mediating social discrimination and recognition. Soc Neurosci Abstr 27, 623.6.
16. Uchida N, Mainen ZF (2002) Concentration-invariant odor quality perception: ratio coding and behavioral discrimination. Soc Neurosci Abstr 28, 12.12.
17. Egger V, Svoboda K, Mainen ZF (2002) Regulation of action potential evoked calcium signals in rat olfactory bulb granule cells: contribution of low - threshold Ca2+ channel inactivation by sustained depolarization. FENS Abstr 1, A185.13.
18. Gurden H, Uchida N, Mainen ZF (2003) Presynaptic origin of odor-evoked intrinsic optical signal in olfactory glomeruli. Soc Neurosci Abstr 29, 489.5.
19. Quirk MC, Feierstein CE, Mainen ZF (2003) Local network interactions within rodent frontal cortex during olfactory discrimination. Soc Neurosci Abstr 29, 489.21.
20. Uchida N, Mainen ZF (2003) Fine olfactory discrimination in a single sniff. Soc Neurosci Abstr 29, 548.4.
21. Zariwala H, Uchida N, Kepecs A, Mainen ZF (2003) Context-dependent changes in olfactory discrimination performance in rodents. Soc Neurosci Abstr 29, 489.19.
22. Egger V, Svoboda K, Mainen ZF (2004) Glomerular input results in distinct modes of calcium signaling in olfactory bulb granule cell dendrites. Soc Neurosci Abstr 30, 67.19.
23. Ranade SP, Mainen ZF (2004) Serotonin modulates odor-evoked sensory input in the rat main olfactory bulb. Soc Neurosci Abstr 30, 531.8.
24. Uchida N, Mainen ZF (2004) Psychophysical characterization of concentration-invariant olfactory recognition. Soc Neurosci Abstr 30, 531.9.
25. Feierstein CE, Quirk MC, Mainen ZF (2004) Spatial coding in piriform and orbitofrontal cortex during olfactory discrimination. Soc Neurosci Abstr 30, 781.19
26. Kepecs A, Mainen ZF (2004) Inter-areal interactions during olfactory discrimination in rats. Soc Neurosci Abstr 30, 899.7.
27. Zariwala HA, Kepecs A, Mainen ZF (2004) Contextual adaptation in rat olfactory discrimination. Soc Neurosci Abstr 30, 899.8.
28. Feierstein CE, Quirk MC, Mainen ZF (2005) Orbitofrontal cortex responses during acquisition of novel stimulus--response associations. Soc. Neurosci. Abstr. 278.11.
29. Gurden H, Pain F, Desbree A, Mastrippolito R, Bonventom G, Hantraye P, Uchida N,Mainen ZF, Laniece P (2005) Odor-evoked activation of olfactory glomeruli: Anattractive model to probe neurometabolic and neurovascular coupling mechanisms by optical and radioisotopic techniques. Soc Neurosci Abstr 31, 189.6.
30. Kepecs A, Uchida N, Mainen ZF (2005) Sniffing patterns in rats performing an olfactory discrimination task. Soc Neurosci Abstr 31, 278.6.
31. Sosulski D, Quirk MC, Mainen ZF (2005) Ketamine inhibits interneuron firing in prefrontal cortex of behaving rats. Soc Neurosci Abstr 31, 444.12.
32. Sato T, Yasuda R, Mainen ZF, Svoboda K (2005) Using [Ca2+] imaging to detect single action potentials in multiple neurons in the mouse somatosensory cortex in vivo. Soc Neurosci Abstr 31, 625.14.
33. Zariwala HA, Uchida N, Mainen ZF (2005) A study of speed and performance accuracy in an olfactory discrimination task. Soc Neurosci Abstr 31, 278.9.
34. Uchida N, Mainen ZF (2006) Rapid formation of dense odor representations in the piriform cortex of behaving rats. Soc Neurosci Abstr 32, 406.10.
35. Kepecs A, Uchida N, Zariwala H, Mainen ZF (2006) Neural encoding and behavioral impact of uncertainty in category decisions. Soc Neurosci Abstr 32, 71.21.
36. Felsen G, Mainen ZF (2006) Activity of orbitofrontal neurons during task learning. Soc Neurosci Abstr 32, 463.1.

Technical reports

1. Bell AJ, Mainen ZF, Tsodyks M, Sejnowski TJ (1995) “Balancing” of conductances may explain irregular cortical spiking. Institute for Neural Computation, University of California, San Diego, Technical report #9502.

On-line publications

1. Mainen ZF (2003) Solving the brain. New York Times Online, Nov 10, 2003.
http://www.nytimes.com/2003/11/10/science/11MAIN.html?ex=1085630400&en=7c17b6d9031f4508&ei=5070