Publications - Kloosterman Research Group

Wouters, J.; Kloosterman, F.; Bertrand, A.

A data-driven spike sorting feature map for resolving spike overlap in the feature space Journal Article

In: Journal of Neural Engineering, vol. 18, no. 4, 2021, ISSN: 1741-2552.

@article{pmid34181592,

title = {A data-driven spike sorting feature map for resolving spike overlap in the feature space},

author = {J. Wouters and F. Kloosterman and A. Bertrand},

doi = {10.1088/1741-2552/ac0f4a},

issn = {1741-2552},

year  = {2021},

date = {2021-07-01},

urldate = {2021-07-01},

journal = {Journal of Neural Engineering},

volume = {18},

number = {4},

abstract = {Spike sorting is the process of extracting neuronal action potentials, or spikes, from an extracellular brain recording, and assigning each spike to its putative source neuron. Spike sorting is usually treated as a clustering problem. However, this clustering process is known to be affected by overlapping spikes. Existing methods for resolving spike overlap typically require an expensive post-processing of the clustering results. In this paper, we propose the design of a domain-specific feature map, which enables the resolution of spike overlap directly in the feature space.The proposed domain-specific feature map is based on a neural network architecture that is trained to simultaneously perform spike sorting and spike overlap resolution. Overlapping spikes clusters can be identified in the feature space through a linear relation with the single-neuron clusters for which the neurons contribute to the overlapping spikes. To aid the feature map training, a data augmentation procedure is presented that is based on biophysical simulations.We demonstrate the potential of our method on independent and realistic test data. We show that our novel approach for resolving spike overlap generalizes to unseen and realistic test data. Furthermore, the sorting performance of our method is shown to be similar to the state-of-the-art, but our method does not assume the availability of spike templates for resolving spike overlap.Resolving spike overlap directly in the feature space, results in an overall simplified spike sorting pipeline compared to the state-of-the-art. For the state-of-the-art, the overlapping spike snippets exhibit a large spread in the feature space and do not appear as concentrated clusters. This can lead to biased spike template estimates which affect the sorting performance of the state-of-the-art. In our proposed approach, overlapping spikes form concentrated clusters and spike overlap resolution does not depend on the availability of spike templates.},

keywords = {spike sorting},

pubstate = {published},

tppubtype = {article}

}

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Wouters, J.; Kloosterman, F.; Bertrand, A.

SHYBRID: A Graphical Tool for Generating Hybrid Ground-Truth Spiking Data for Evaluating Spike Sorting Performance Journal Article

In: Neuroinformatics, vol. 19, no. 1, pp. 141–158, 2021.

Wouters, J.; Patrinos, P.; Kloosterman, F.; Bertrand, A.

Multi-Pattern Recognition Through Maximization of Signal-to-Peak-Interference Ratio With Application to Neural Spike Sorting Journal Article

In: IEEE Transactions on Signal Processing, vol. 68, pp. 6240–6254, 2020.

Wouters, J.; Kloosterman, F.; Bertrand, A.

A data-driven regularization approach for template matching in spike sorting with high-density neural probes Proceedings Article

In: 41st Annual International IEEE EMBS Conference, pp. 4376–4379, 2019.

Wouters, J.; Kloosterman, F.; Bertrand, A.

Towards online spike sorting for high-density neural probes using discriminative template matching with suppression of interfering spikes Journal Article

In: Journal of Neural Engineering, vol. 15, no. 5, pp. 056005, 2018.