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You are here: Home Data Sets Somatosensory cortex ssc-3 (Somatosensory cortex 3) About ssc-3

About ssc-3

Information about the data including data types, experiments, format of the data, how to download the data.

Summary of the data

These data contain a record of neuron spiking activity in mouse somatosensory cortex. The recordings were performed in organotypic slice cultures after 2 to 4 weeks in vitro. The recordings were performed with a large and dense multielectrode array (512 electrodes, 60 μm interelectrode spacing, 5 μm electrode diameter, flat electrodes, roughly 1 mm by 2 mm total array area). The cultures were not stimulated, so these data represent spontaneous activity. The spiking activity was spike sorted using PCA. Details about the recording method are described in [1, 2], and results from these particular data are presented in [1, 3-6]. In total, 25 recordings are provided, most of which possess hundreds of neurons (min: 98, max: 594, mean: 309, total: 7735).

The data is described in:

1. Ito, S., et al., Large-scale, high-resolution multielectrode-array recording depicts functional network differences of cortical and hippocampal cultures. PloS One, 2014. 9(8): e105324.
2. Litke, A.M., et al., What does the eye tell the brain?: development of a system for the large-scale recording of retinal output activity. IEEE Transactions on Nuclear Science, 2004. 51(4).
3. Timme, N., et al., Multiplex networks of cortical and hippocampal neurons revealed at different timescales. PLoS One, 2014. 9(12): e115764.
4. Nigam, S., et al., Rich-club organization in effective connectivity among cortical neurons. Journal of Neuroscience, 2016. 36(3): p. 670-684.
5. Shimono, M. and J.M. Beggs, Functional clusters, hubs, and communities in the cortical microconnectome. Cerebral Cortex, 2014: p. 1-15.
6. Timme NM, Ito S, Myroshnychenko M, Nigam S, Shimono M, Yeh F-C, et al. (2016) High-Degree Neurons Feed Cortical Computations. PLoS Comput Biol 12(5): e1004858. doi:10.1371/journal.pcbi.1004858.

Format of the data

All information for each individual recording is contained in a numbered Matlab .mat file named DataSetX, where X is the number of the data set (1 to 25). The Matlab structures are described in the document linked to at the end of this page. Total data size is about 184 MB compressed.

Conditions for usage of this data in publications

Before you publish any work using these data, we ask that you first consult the authors. Furthermore, please cite publications [1, 2] as these papers describe the experimental methods. Also, please consider citing to these additional works that used these data [3-6]. Finally, please cite the data set in the following recommended format:

Shinya Ito, Fang-Chin Yeh, Nicholas M. Timme, Pawel Hottowy, Alan M. Litke, and John M. Beggs (2016); Spontaneous spiking activity of hundreds of neurons in mouse somatosensory cortex slice cultures recorded using a dense 512 electrode array.

The above citation uses a Digital Object Identifier (DOI) which is assigned to the data set.  The DOI was created using DataCite ( and the California Digital Library, "EZID" system (

How to download the data

Data may be downloaded from:
A account is required. See the download link for more instructions.

Getting help using the data

If you have questions about using the data, please post them on the forum for using data sets.

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