Literature DB >> 23912463

Multichannel electrophysiological spike sorting via joint dictionary learning and mixture modeling.

David E Carlson, Joshua T Vogelstein, Colin R Stoetzner, Daryl Kipke, Douglas Weber, David B Dunson, Lawrence Carin.   

Abstract

We propose a methodology for joint feature learning and clustering of multichannel extracellular electrophysiological data, across multiple recording periods for action potential detection and classification (sorting). Our methodology improves over the previous state of the art principally in four ways. First, via sharing information across channels, we can better distinguish between single-unit spikes and artifacts. Second, our proposed "focused mixture model" (FMM) deals with units appearing, disappearing, or reappearing over multiple recording days, an important consideration for any chronic experiment. Third, by jointly learning features and clusters, we improve performance over previous attempts that proceeded via a two-stage learning process. Fourth, by directly modeling spike rate, we improve the detection of sparsely firing neurons. Moreover, our Bayesian methodology seamlessly handles missing data. We present the state-of-the-art performance without requiring manually tuning hyperparameters, considering both a public dataset with partial ground truth and a new experimental dataset.

Mesh:

Year:  2013        PMID: 23912463     DOI: 10.1109/TBME.2013.2275751

Source DB:  PubMed          Journal:  IEEE Trans Biomed Eng        ISSN: 0018-9294            Impact factor:   4.538


  11 in total

1.  Neurophysiological analytics for all! Free open-source software tools for documenting, analyzing, visualizing, and sharing using electronic notebooks.

Authors:  David M Rosenberg; Charles C Horn
Journal:  J Neurophysiol       Date:  2016-04-20       Impact factor: 2.714

Review 2.  Continuing progress of spike sorting in the era of big data.

Authors:  David Carlson; Lawrence Carin
Journal:  Curr Opin Neurobiol       Date:  2019-03-08       Impact factor: 6.627

3.  Mixture models with a prior on the number of components.

Authors:  Jeffrey W Miller; Matthew T Harrison
Journal:  J Am Stat Assoc       Date:  2017-11-13       Impact factor: 5.033

4.  A computationally efficient method for incorporating spike waveform information into decoding algorithms.

Authors:  Valérie Ventura; Sonia Todorova
Journal:  Neural Comput       Date:  2015-03-16       Impact factor: 2.026

5.  To sort or not to sort: the impact of spike-sorting on neural decoding performance.

Authors:  Sonia Todorova; Patrick Sadtler; Aaron Batista; Steven Chase; Valérie Ventura
Journal:  J Neural Eng       Date:  2014-08-01       Impact factor: 5.379

6.  Toward an Improvement of the Analysis of Neural Coding.

Authors:  Javier Alegre-Cortés; Cristina Soto-Sánchez; Ana L Albarracín; Fernando D Farfán; Mikel Val-Calvo; José M Ferrandez; Eduardo Fernandez
Journal:  Front Neuroinform       Date:  2018-01-10       Impact factor: 4.081

7.  Compatibility Evaluation of Clustering Algorithms for Contemporary Extracellular Neural Spike Sorting.

Authors:  Rakesh Veerabhadrappa; Masood Ul Hassan; James Zhang; Asim Bhatti
Journal:  Front Syst Neurosci       Date:  2020-06-30

8.  SpikeForest, reproducible web-facing ground-truth validation of automated neural spike sorters.

Authors:  Jeremy Magland; James J Jun; Elizabeth Lovero; Alexander J Morley; Cole Lincoln Hurwitz; Alessio Paolo Buccino; Samuel Garcia; Alex H Barnett
Journal:  Elife       Date:  2020-05-19       Impact factor: 8.140

9.  A Fully Automated Approach to Spike Sorting.

Authors:  Jason E Chung; Jeremy F Magland; Alex H Barnett; Vanessa M Tolosa; Angela C Tooker; Kye Y Lee; Kedar G Shah; Sarah H Felix; Loren M Frank; Leslie F Greengard
Journal:  Neuron       Date:  2017-09-13       Impact factor: 17.173

10.  Spike sorting for large, dense electrode arrays.

Authors:  Cyrille Rossant; Shabnam N Kadir; Dan F M Goodman; John Schulman; Maximilian L D Hunter; Aman B Saleem; Andres Grosmark; Mariano Belluscio; George H Denfield; Alexander S Ecker; Andreas S Tolias; Samuel Solomon; Gyorgy Buzsaki; Matteo Carandini; Kenneth D Harris
Journal:  Nat Neurosci       Date:  2016-03-14       Impact factor: 24.884

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