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Building the Ferretome.

Dmitrii I Sukhinin1, Andreas K Engel2, Paul Manger3

  • 1Department of Computational Neuroscience, University Medical Center Hamburg-Eppendorf Hamburg, Germany.

Frontiers in Neuroinformatics
|June 1, 2016
PubMed
Summary

The Ferretome database provides a systematic compilation of ferret brain anatomical connections and architectonic features. This new resource supports neuroinformatics, neural modeling, and comparative brain connectivity studies.

Keywords:
brain connectivityconnectomicsdatabases as topicferretsmodelstheoreticaltract-tracing

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Area of Science:

  • Neuroscience
  • Neuroinformatics
  • Computational Neuroscience

Background:

  • Existing mammalian brain connectivity databases like CoCoMac and BAMS aid in analyzing brain connectivity and modeling dynamics in primates and rodents.
  • The ferret is a widely used animal model in electrophysiology and developmental studies, yet lacks a systematic brain connectivity database.
  • This gap hinders comprehensive research and comparative analyses involving ferret brain structure.

Purpose of the Study:

  • To develop the Ferretome, a novel database compiling anatomical connections and architectonic features of the ferret brain.
  • To establish a centralized, accessible resource for researchers studying ferret neuroanatomy and connectivity.
  • To facilitate computational modeling and comparative studies of brain connectivity across species.

Main Methods:

  • Adapted and extended the CoCoMac data model to include new data modalities like cytoarchitecture.
  • Implemented a semantic parcellation of brain regions and an objective relational transformation (ORT) algorithm for data transformation.
  • Developed a custom web interface for efficient data input, validation, and proofreading by multiple curators, with a non-specialist front-end.

Main Results:

  • The Ferretome database currently contains 50 connection reports from 20 injection studies, detailing over 150 labeled source and target areas, primarily subcortical.
  • Includes 15 descriptions of regional brain architecture, integrating structural and connectional data.
  • Enables tracing connectivity matrix entries back to original literature sources, ensuring data provenance.

Conclusions:

  • The Ferretome database serves as a valuable resource for neuroinformatics and neural modeling of the ferret brain.
  • It is expected to support specialized studies of the ferret brain and advance comparative analyses of mesoscopic brain connectivity.
  • This database fills a critical need for systematic connectivity data in the ferret model system.