IDEAS home Printed from https://ideas.repec.org/a/plo/pcbi00/1003408.html
   My bibliography  Save this article

Searching for Collective Behavior in a Large Network of Sensory Neurons

Author

Listed:
  • Gašper Tkačik
  • Olivier Marre
  • Dario Amodei
  • Elad Schneidman
  • William Bialek
  • Michael J Berry II

Abstract

Maximum entropy models are the least structured probability distributions that exactly reproduce a chosen set of statistics measured in an interacting network. Here we use this principle to construct probabilistic models which describe the correlated spiking activity of populations of up to 120 neurons in the salamander retina as it responds to natural movies. Already in groups as small as 10 neurons, interactions between spikes can no longer be regarded as small perturbations in an otherwise independent system; for 40 or more neurons pairwise interactions need to be supplemented by a global interaction that controls the distribution of synchrony in the population. Here we show that such “K-pairwise” models—being systematic extensions of the previously used pairwise Ising models—provide an excellent account of the data. We explore the properties of the neural vocabulary by: 1) estimating its entropy, which constrains the population's capacity to represent visual information; 2) classifying activity patterns into a small set of metastable collective modes; 3) showing that the neural codeword ensembles are extremely inhomogenous; 4) demonstrating that the state of individual neurons is highly predictable from the rest of the population, allowing the capacity for error correction.Author Summary: Sensory neurons encode information about the world into sequences of spiking and silence. Multi-electrode array recordings have enabled us to move from single units to measuring the responses of many neurons simultaneously, and thus to ask questions about how populations of neurons as a whole represent their input signals. Here we build on previous work that has shown that in the salamander retina, pairs of retinal ganglion cells are only weakly correlated, yet the population spiking activity exhibits large departures from a model where the neurons would be independent. We analyze data from more than a hundred salamander retinal ganglion cells and characterize their collective response using maximum entropy models of statistical physics. With these models in hand, we can put bounds on the amount of information encoded by the neural population, constructively demonstrate that the code has error correcting redundancy, and advance two hypotheses about the neural code: that collective states of the network could carry stimulus information, and that the distribution of neural activity patterns has very nontrivial statistical properties, possibly related to critical systems in statistical physics.

Suggested Citation

  • Gašper Tkačik & Olivier Marre & Dario Amodei & Elad Schneidman & William Bialek & Michael J Berry II, 2014. "Searching for Collective Behavior in a Large Network of Sensory Neurons," PLOS Computational Biology, Public Library of Science, vol. 10(1), pages 1-23, January.
  • Handle: RePEc:plo:pcbi00:1003408
    DOI: 10.1371/journal.pcbi.1003408
    as

    Download full text from publisher

    File URL: https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003408
    Download Restriction: no

    File URL: https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003408&type=printable
    Download Restriction: no

    File URL: https://libkey.io/10.1371/journal.pcbi.1003408?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    1. Jonathan W. Pillow & Jonathon Shlens & Liam Paninski & Alexander Sher & Alan M. Litke & E. J. Chichilnisky & Eero P. Simoncelli, 2008. "Spatio-temporal correlations and visual signalling in a complete neuronal population," Nature, Nature, vol. 454(7207), pages 995-999, August.
    2. Elad Schneidman & Michael J. Berry & Ronen Segev & William Bialek, 2006. "Weak pairwise correlations imply strongly correlated network states in a neural population," Nature, Nature, vol. 440(7087), pages 1007-1012, April.
    3. Einat Granot-Atedgi & Gašper Tkačik & Ronen Segev & Elad Schneidman, 2013. "Stimulus-dependent Maximum Entropy Models of Neural Population Codes," PLOS Computational Biology, Public Library of Science, vol. 9(3), pages 1-14, March.
    4. Yasser Roudi & Sheila Nirenberg & Peter E Latham, 2009. "Pairwise Maximum Entropy Models for Studying Large Biological Systems: When They Can Work and When They Can't," PLOS Computational Biology, Public Library of Science, vol. 5(5), pages 1-18, May.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Jan Humplik & Gašper Tkačik, 2017. "Probabilistic models for neural populations that naturally capture global coupling and criticality," PLOS Computational Biology, Public Library of Science, vol. 13(9), pages 1-26, September.
    2. Alok Maity & Roy Wollman, 2020. "Information transmission from NFkB signaling dynamics to gene expression," PLOS Computational Biology, Public Library of Science, vol. 16(8), pages 1-16, August.
    3. Urs Köster & Jascha Sohl-Dickstein & Charles M Gray & Bruno A Olshausen, 2014. "Modeling Higher-Order Correlations within Cortical Microcolumns," PLOS Computational Biology, Public Library of Science, vol. 10(7), pages 1-12, July.
    4. Markus Helmer & Vladislav Kozyrev & Valeska Stephan & Stefan Treue & Theo Geisel & Demian Battaglia, 2016. "Model-Free Estimation of Tuning Curves and Their Attentional Modulation, Based on Sparse and Noisy Data," PLOS ONE, Public Library of Science, vol. 11(1), pages 1-33, January.
    5. Valle, Mauricio A. & Ruz, Gonzalo A. & Rica, Sergio, 2019. "Market basket analysis by solving the inverse Ising problem: Discovering pairwise interaction strengths among products," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 524(C), pages 36-44.
    6. Pau Farré & Eldon Emberly, 2018. "A maximum-entropy model for predicting chromatin contacts," PLOS Computational Biology, Public Library of Science, vol. 14(2), pages 1-16, February.
    7. Christian Donner & Klaus Obermayer & Hideaki Shimazaki, 2017. "Approximate Inference for Time-Varying Interactions and Macroscopic Dynamics of Neural Populations," PLOS Computational Biology, Public Library of Science, vol. 13(1), pages 1-27, January.
    8. Jason S Prentice & Olivier Marre & Mark L Ioffe & Adrianna R Loback & Gašper Tkačik & Michael J Berry II, 2016. "Error-Robust Modes of the Retinal Population Code," PLOS Computational Biology, Public Library of Science, vol. 12(11), pages 1-32, November.
    9. Stojan Jovanović & Stefan Rotter, 2016. "Interplay between Graph Topology and Correlations of Third Order in Spiking Neuronal Networks," PLOS Computational Biology, Public Library of Science, vol. 12(6), pages 1-28, June.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Christian Donner & Klaus Obermayer & Hideaki Shimazaki, 2017. "Approximate Inference for Time-Varying Interactions and Macroscopic Dynamics of Neural Populations," PLOS Computational Biology, Public Library of Science, vol. 13(1), pages 1-27, January.
    2. Jason S Prentice & Olivier Marre & Mark L Ioffe & Adrianna R Loback & Gašper Tkačik & Michael J Berry II, 2016. "Error-Robust Modes of the Retinal Population Code," PLOS Computational Biology, Public Library of Science, vol. 12(11), pages 1-32, November.
    3. Urs Köster & Jascha Sohl-Dickstein & Charles M Gray & Bruno A Olshausen, 2014. "Modeling Higher-Order Correlations within Cortical Microcolumns," PLOS Computational Biology, Public Library of Science, vol. 10(7), pages 1-12, July.
    4. Porta Mana, PierGianLuca & Rostami, Vahid & Torre, Emiliano & Roudi, Yasser, 2018. "Maximum-entropy and representative samples of neuronal activity: a dilemma," OSF Preprints uz29n, Center for Open Science.
    5. Dimitri Yatsenko & Krešimir Josić & Alexander S Ecker & Emmanouil Froudarakis & R James Cotton & Andreas S Tolias, 2015. "Improved Estimation and Interpretation of Correlations in Neural Circuits," PLOS Computational Biology, Public Library of Science, vol. 11(3), pages 1-28, March.
    6. Benjamin Dunn & Maria Mørreaunet & Yasser Roudi, 2015. "Correlations and Functional Connections in a Population of Grid Cells," PLOS Computational Biology, Public Library of Science, vol. 11(2), pages 1-21, February.
    7. Arno Onken & Valentin Dragoi & Klaus Obermayer, 2012. "A Maximum Entropy Test for Evaluating Higher-Order Correlations in Spike Counts," PLOS Computational Biology, Public Library of Science, vol. 8(6), pages 1-12, June.
    8. Hideaki Shimazaki & Shun-ichi Amari & Emery N Brown & Sonja Grün, 2012. "State-Space Analysis of Time-Varying Higher-Order Spike Correlation for Multiple Neural Spike Train Data," PLOS Computational Biology, Public Library of Science, vol. 8(3), pages 1-27, March.
    9. Montani, Fernando & Phoka, Elena & Portesi, Mariela & Schultz, Simon R., 2013. "Statistical modelling of higher-order correlations in pools of neural activity," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 392(14), pages 3066-3086.
    10. Jan Humplik & Gašper Tkačik, 2017. "Probabilistic models for neural populations that naturally capture global coupling and criticality," PLOS Computational Biology, Public Library of Science, vol. 13(9), pages 1-26, September.
    11. Einat Granot-Atedgi & Gašper Tkačik & Ronen Segev & Elad Schneidman, 2013. "Stimulus-dependent Maximum Entropy Models of Neural Population Codes," PLOS Computational Biology, Public Library of Science, vol. 9(3), pages 1-14, March.
    12. Seif Eldawlatly & Karim G Oweiss, 2011. "Millisecond-Timescale Local Network Coding in the Rat Primary Somatosensory Cortex," PLOS ONE, Public Library of Science, vol. 6(6), pages 1-14, June.
    13. Cristiano Capone & Carla Filosa & Guido Gigante & Federico Ricci-Tersenghi & Paolo Del Giudice, 2015. "Inferring Synaptic Structure in Presence of Neural Interaction Time Scales," PLOS ONE, Public Library of Science, vol. 10(3), pages 1-21, March.
    14. Guillaume Viejo & Thomas Cortier & Adrien Peyrache, 2018. "Brain-state invariant thalamo-cortical coordination revealed by non-linear encoders," PLOS Computational Biology, Public Library of Science, vol. 14(3), pages 1-25, March.
    15. Cofré, Rodrigo & Cessac, Bruno, 2013. "Dynamics and spike trains statistics in conductance-based integrate-and-fire neural networks with chemical and electric synapses," Chaos, Solitons & Fractals, Elsevier, vol. 50(C), pages 13-31.
    16. Bury, Thomas, 2014. "Predicting trend reversals using market instantaneous state," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 404(C), pages 79-91.
    17. Thomas Bury, 2013. "Predicting trend reversals using market instantaneous state," Papers 1310.8169, arXiv.org, revised Mar 2014.
    18. Xi, Ning & Muneepeerakul, Rachata & Azaele, Sandro & Wang, Yougui, 2014. "Maximum entropy model for business cycle synchronization," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 413(C), pages 189-194.
    19. Stefano Recanatesi & Gabriel Koch Ocker & Michael A Buice & Eric Shea-Brown, 2019. "Dimensionality in recurrent spiking networks: Global trends in activity and local origins in connectivity," PLOS Computational Biology, Public Library of Science, vol. 15(7), pages 1-29, July.
    20. Montangie, Lisandro & Montani, Fernando, 2015. "Quantifying higher-order correlations in a neuronal pool," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 421(C), pages 388-400.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:plo:pcbi00:1003408. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: ploscompbiol (email available below). General contact details of provider: https://journals.plos.org/ploscompbiol/ .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.