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The Frank Lab

https://franklab.ucsf.edu/

Our laboratory focuses on the circuitry of the hippocampus and anatomically related regions. We use a combination of techniques, including large scale multielectrode recording, real-time signal processing and targeted optogenetic interventions and behavioral manipulations of awake, behaving animals to understand how the brain learns, remembers and decides.

lab picture

Main Data Processing Pipelines

  • spyglass - Neuroscience data analysis framework using NWB files and Datajoint pipelines
  • trodes_to_nwb - Convert trodes .rec files to the NWB 2.0+ data format
  • NWB Yaml creator - Create standardized metadata YAML files for use with trodes_to_nwb

Useful Data Processing Packages

Code for Papers

  • Joshi, A., Denovellis, E.L., Mankili, A., Meneksedag, Y., Davidson, T.J., Gillespie, A.K., Guidera, J.A., Roumis, D., and Frank, L.M. (2023). Dynamic synchronization between hippocampal representations and stepping. Nature. 2023 Apr 12;10.1038/s41586-023-05928-6. [Paper] [Code] [Data]
  • Denovellis EL, Gillespie AK, Coulter ME, Sosa M, Chung JE, Eden UT, et al. Hippocampal replay of experience at real-world speeds. eLife. 2021 Sep 27;10:e64505. [Paper] [Code] [Data]
  • Gillespie AK, Astudillo Maya DA, Denovellis EL, Liu DF, Kastner DB, Coulter ME, et al. Hippocampal replay reflects specific past experiences rather than a plan for subsequent choice. Neuron. 2021 Aug;S0896627321005730. [Paper] [Code] [Data]