Decoding cortical brain states from widefield calcium imaging data using visibility graph

Li Zhu, Christian R. Lee, David J. Margolis, Laleh Najafizadeh

Research output: Contribution to journalArticlepeer-review

8 Scopus citations


Widefield optical imaging of neuronal populations over large portions of the cerebral cortex in awake behaving animals provides a unique opportunity for investigating the relationship between brain function and behavior. In this paper, we demonstrate that the temporal characteristics of calcium dynamics obtained through widefield imaging can be utilized to infer the corresponding behavior. Cortical activity in transgenic calcium reporter mice (n=6) expressing GCaMP6f in neocortical pyramidal neurons is recorded during active whisking (AW) and no whisking (NW). To extract features related to the temporal characteristics of calcium recordings, a method based on visibility graph (VG) is introduced. An extensive study considering different choices of features and classifiers is conducted to find the best model capable of predicting AW and NW from calcium recordings. Our experimental results show that temporal characteristics of calcium recordings identified by the proposed method carry discriminatory information that are powerful enough for decoding behavior.

Original languageEnglish (US)
Article number#320299
Pages (from-to)3017-3036
Number of pages20
JournalBiomedical Optics Express
Issue number7
StatePublished - Jul 1 2018

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Atomic and Molecular Physics, and Optics

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