Evolutionary Neural Coding Lab

Dragon eye cam
Photo from Mark(2)
CMOS MEA (24,600 channels) recordings
Eye brain preparation ex-vivo



Our goal is to understand how collective neuronal activity is organized and how this organization sub-serves coding in the brain. But how to expose simple coding principles from the multi-scale complexity of neuronal systems? We are motivated by the acknowledgement that brains and neuronal coding schemes are products of evolution and can be flashed out by viewing them in an evolutionary context, by using comparative approaches over diverse species and by choosing optimal models systems. Specifically, we study the brains of reptiles which are the closest to stem amniotes - the first animals that completed the transition to life on land and the first to develop a layered cerebral cortex.

Tools. We employ a wide set of techniques to study the hitherto under-explored reptilian brain: We use large-scale (thousands of electrodes) extra-cellular electrophysiology and intra-cellular electrophysiology to study circuits both ex-vivo and in-vivo. We develop data analysis approaches to deal with the overgrowing richness of our data sets. We couple our experiments with quantitative behavioral analysis to place brain dynamics in context. We build computational models to test ideas and develop theories.





Journal publications

Arieli E, Gerbi R, Shein-Idelson M, and Moran A (2020). Temporally-precise basolateral amygdala activation is required for the formation of taste memories in gustatory cortex. J Physiology.

Hemberger M, Shein-Idelson M, Pammer L and Laurent G (2019). Reliable sequential activation of neural assemblies by single pyramidal cells in a three layered cortex. Neuron 104(2):353-369. 📖 

Shein-Idelson M, Pammer L, Hemberger M and Laurent G (2017). Large-scale mapping of cortical synaptic projections with extracellular electrode arrays. Nature Methods 14(9):882-890. 📖

Shein-Idelson M*,Ondracek J M*, Liaw H, Reiter S, Laurent G (2016). Slow Waves, Sharp-waves, Ripples and REM in Sleeping Dragons. Science. 352 (6285), 590-595. 📖

Fournier J,  Mueller C M,  Shein-Idelson M, Hemberger M, Laurent G (2016). Consensus-Based Sorting of Neuronal Spike Waveforms. PLoS ONE 11(8): e0160494. 📖

Shein-Idelson M, Cohen G, Ben-Jacob E, Hanein Y (2016). Modularity induced gating and delays in neuronal networks. PLoS Computational Biolology 12(4): e1004883. 📖

Naumann R K, Ondracek J M, Reiter S, Shein-Idelson M, Tosches M A, Yamawaki T M, Laurent G (2015). The reptilian brain. Current Biology 25 (8), 317–321.  📖

Shein-Idelson M, Ben-Jacob E, Hanein Y (2011). Engineered neuronal circuits: A new platform for studying the role of modular topology. Frontiers in Neuroengineering 4:10. 📖

Herzog N, Shein-Idelson M, Hanein Y (2011). Optical validation of in vitro extra-cellular neuronal recordings. Journal of Neural Engineering 8(6),056008. 📖

Shein-Idelson M, Ben-Jacob E, Hanein Y (2010). Innate synchronous oscillations in freely-organized small neuronal circuits. PLoS One 5(12), e14443. 📖

Greenbaum A, Anava S, Ayali A, Shein M, David-Pur M, Ben-Jacob E, Hanein Y (2009). One-to-one neuron-electrode interfacing. Journal of Neuroscience Methods 182(2), 219-224. 📖

Shoval A, Adams C, David-Pur M, Shein M, Hanein Y, Sernagor E, (2009). Carbon nanotube electrodes for effective interfacing with retinal tissue. Frontiers in Neuroengineering 2, 4. 📖

Shein M, Greenbaum A, Gabay T, Sorkin R, David-Pur M, Ben-Jacob E, Hanein Y (2009). Engineered neuronal circuits shaped and interfaced with carbon nanotube microelectrode arrays. Biomedical Microdevices 11(2), 495-501. 📖

Shein M, Volman V, Raichman N, Hanein Y, Ben-Jacob E (2008). Management of synchronized network activity by highly active neurons. Physical Biology 5(3), 036008. 📖

Baruchi I, Volman V, Raichman N, Shein M, Ben-Jacob E (2008). The emergence and properties of mutual synchronization in in vitro coupled cortical networks. European Journal of Neuroscience 28(9), 1825-1835. 📖

Rubinsky L, Raichman N, Baruchi I, Shein M, Lavee J, Frenk H, Ben-Jacob E (2007). Study of hypothermia on cultured neuronal networks using multi-electrode arrays. Journal of Neuroscience Methods 160(2), 288-293. 📖

Baruchi I, Grossman D, Volman V, Shein M, Hunter J, Towle VL, Ben-Jacob E (2006). Functional holography analysis: simplifying the complexity of dynamical networks. Chaos 16(1), 015112. 📖

Book chapters:

Laurent G, Fournier G, Hemberger M, Mueller C, Naumann R, Ondracek J M, Pammer L, Reiter S, Shein-Idelson M, Tosches M A and Yamawaki T (2016). Cortical Evolution: Introduction to the Reptilian Cortex. In Buzsaki G, Christen Y (Eds.), Micro-, Meso- and Macro-Dynamics of the Brain.

Pur M, Shein M, Hanein Y (2010). Carbon Nanotube-Based Neurochips. In: Balasubramanian K, Burghard M (Eds.), Carbon Nanotubes: Methods and Protocols, pp. 171-177.

Raichman N, Rubinsky L, Shein M, Baruchi I, Volman V, Ben-Jacob E (2009). Cultured Neuronal Networks Express Complex Patterns of Activity and Morphological Memory. In: Boccaletti S, Latora V, Moreno Y (Eds.), World scientific lectures notes in complex systems, pp. 257-278.