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Research Article

Relating Neuronal Firing Patterns to Functional Differentiation of Cerebral Cortex

  • Shigeru Shinomoto equal contributor mail,

    equal contributor Contributed equally to this work with: Shigeru Shinomoto, Hideaki Kim, Takeaki Shimokawa

    shinomoto@scphys.kyoto-u.ac.jp

    Affiliation: Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, Japan

    X
  • Hideaki Kim equal contributor,

    equal contributor Contributed equally to this work with: Shigeru Shinomoto, Hideaki Kim, Takeaki Shimokawa

    Affiliation: Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, Japan

    X
  • Takeaki Shimokawa equal contributor,

    equal contributor Contributed equally to this work with: Shigeru Shinomoto, Hideaki Kim, Takeaki Shimokawa

    Affiliation: Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, Japan

    X
  • Nanae Matsuno,

    Affiliation: Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, Japan

    X
  • Shintaro Funahashi,

    Affiliation: Kokoro Research Center, Kyoto University, Sakyo-ku, Kyoto, Japan

    X
  • Keisetsu Shima,

    Affiliation: Department of Physiology, Tohoku University School of Medicine, Aoba-ku, Sendai, Japan

    X
  • Ichiro Fujita,

    Affiliation: Laboratory for Cognitive Neuroscience, Graduate School of Frontier Biosciences, Osaka University, Toyonaka, Osaka, Japan

    X
  • Hiroshi Tamura,

    Affiliation: Laboratory for Cognitive Neuroscience, Graduate School of Frontier Biosciences, Osaka University, Toyonaka, Osaka, Japan

    X
  • Taijiro Doi,

    Affiliation: Laboratory for Cognitive Neuroscience, Graduate School of Frontier Biosciences, Osaka University, Toyonaka, Osaka, Japan

    X
  • Kenji Kawano,

    Affiliation: Department of Integrative Brain Science, Graduate School of Medicine, Kyoto University, Sakyo-ku, Kyoto, Japan

    X
  • Naoko Inaba,

    Affiliation: Department of Integrative Brain Science, Graduate School of Medicine, Kyoto University, Sakyo-ku, Kyoto, Japan

    X
  • Kikuro Fukushima,

    Affiliation: Department of Physiology, Hokkaido University School of Medicine, Sapporo, Japan

    X
  • Sergei Kurkin,

    Affiliation: Department of Physiology, Hokkaido University School of Medicine, Sapporo, Japan

    X
  • Kiyoshi Kurata,

    Affiliation: Department of Physiology, Hirosaki University School of Medicine, Hirosaki, Japan

    X
  • Masato Taira,

    Affiliation: Division of Applied System Neuroscience, Advanced Medical Research Center, Nihon University Graduate School of Medical Science, Tokyo, Japan

    X
  • Ken-Ichiro Tsutsui,

    Affiliation: Division of Systems Neuroscience, Tohoku University Graduate School of Life Sciences, Aoba-ku, Sendai, Japan

    X
  • Hidehiko Komatsu,

    Affiliation: Division of Sensory and Cognitive Information, National Institute for Physiological Sciences, Myodaiji, Okazaki, Aichi, Japan

    X
  • Tadashi Ogawa,

    Affiliations: Department of Integrative Brain Science, Graduate School of Medicine, Kyoto University, Sakyo-ku, Kyoto, Japan, Division of Sensory and Cognitive Information, National Institute for Physiological Sciences, Myodaiji, Okazaki, Aichi, Japan

    X
  • Kowa Koida,

    Affiliation: Division of Sensory and Cognitive Information, National Institute for Physiological Sciences, Myodaiji, Okazaki, Aichi, Japan

    X
  • Jun Tanji,

    Affiliation: Tamagawa University Brain Science Institute, Machida, Tokyo, Japan

    X
  • Keisuke Toyama

    Affiliation: ATR Computational Neuroscience Laboratories, Seika-cho, Soraku-gun, Kyoto, Japan

    X
  • Published: July 10, 2009
  • DOI: 10.1371/journal.pcbi.1000433

Reader Comments (2)

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LvR for low frequency activity

Posted by Blowfish on 12 Aug 2009 at 01:00 GMT

You filtered your data such that only cells with mean firing rates > 5Hz were used. Is LvR a good measure of irregularity for activity between 1Hz and 4Hz?

No competing interests declared.

RE: LvR for low frequency activity

shino replied to Blowfish on 18 Aug 2009 at 06:49 GMT

Yes. LvR may detect the intrinsic firing characteristics even for low firing rate spike trains. In our paper, we limited the range of firing rate > 5Hz for the purpose of standardizing the analysis, but there is in fact no limit for the use of the metric.

The last term of equation (3) was installed exclusively in LvR for compensating firing refractoriness. As the firing rate lowers, this correction becomes weaker, and LvR would indicate a value close to that of Lv. Nevertheless, both metrics may efficiently detect firing irregularity intrinsic and specific to individual neurons (see Figure 5 for reference).

The refractoriness parameter R was determined to be R=5msec in our paper by maximizing metric performance using the F-test statistic. It is in principle possible to adjust this parameter exclusively to a particular data set in the same manner as this. Note, however, that the robust optimization of the parameter R requires a huge amount of data sets, as has been done in our paper. Thus we would like to recommend adopting the fixed parameter R=5msec in analyzing neuronal firing patterns.

In this connection, we present application programs in the website
http://www.ton.scphys.kyo...
which helps researchers analyze the firing rate and irregularity. Using these web applications, one may examine whether or not the firing irregularity varies in time and with behavioral context. We are enriching the website by adding more application programs. You may freely use Java applications or download MATLAB codes from the website.

No competing interests declared.