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Basic Science and Pathogenesis.

Jason Webster1, Yiqin Alicia Shen1, Ali Shojaie1

  • 1University of Washington, Seattle, WA, USA.

Alzheimer'S & Dementia : the Journal of the Alzheimer'S Association
|December 24, 2025
PubMed
Summary
This summary is machine-generated.

Researchers developed ADAPT, a tool linking brain atlases to locate Alzheimer's Disease and Related Dementias (ADRD) biorepository tissue samples. This facilitates interdisciplinary research by enabling precise identification of tissue with specific neuroscience attributes.

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Area of Science:

  • Neuroscience
  • Bioinformatics
  • Neuroimaging

Background:

  • Research in Alzheimer's Disease and Related Dementias (ADRD) relies on the availability and characterization of postmortem brain tissue.
  • The digital Brain Sampling Protocol (BSP) atlas provides a 3D representation of fixed-tissue sampling protocols.
  • Locating specific tissue samples within biorepositories has been a challenge for interdisciplinary research.

Purpose of the Study:

  • To develop a method for linking the digital BSP atlas to diverse neuroscience atlases.
  • To enable the location of biorepository tissue samples using arbitrary neuroscience terminology.
  • To optimize the use of brain tissue resources for ADRD research.

Main Methods:

  • Multiple neuroscience atlases (covering anatomy, nuclei, connectivity, etc.) were registered to the MNI2009b template.
  • Atlas labels, full names, and volumes within BSP samples were stored in a PyMongo database.
  • A R/Shiny web-enabled interface was created for interactive exploration and text-based search.

Main Results:

  • ADAPT (Atlas-Driven Access to Postmortem Tissue) was developed, linking the digital BSP atlas to various neuroscience reference atlases.
  • Co-registration to MNI2009b allows for visualization using standard neuroimaging software.
  • The system enables the identification of brain tissue samples containing specific neuroscience terms and estimates their volume.

Conclusions:

  • ADAPT offers a versatile and scalable solution for characterizing and locating brain biorepository resources for ADRD research.
  • The system's use of neuroinformatics conventions simplifies the integration of additional atlases and enhances compatibility with analysis tools.
  • The web-enabled interface lowers the barrier for collaboration by facilitating rapid identification of suitable tissue samples and providing criteria for sample optimality.