{
  "abstract": "The hippocampal formation is a highly curved and topographically complex forebrain structure. This complex geometry presents persistent challenges for analyzing subregional, laminar, and connectivity patterns. Here, we present a computational workflow that generates curvilinear-coordinate flatmaps from mouse Common Coordinate Framework (CCF) registered hippocampal and retrohippocampal regions by solving the Laplacian equation to derive geodesic streamlines. This transformation unfolds the hippocampus into a planar slab, bounded by the meningeal and ventricular surfaces, with the depth defined along the radial axis. We apply this transform to mouse CCF-registered image volumes, single neuron reconstructions, and point cloud data, including spatial transcriptomic and rabies tracing datasets, revealing topographic variations in the dorsoventral and radial axes that are obscured in the CCF coordinate space. As proof of principle, we use flatmaps to show connectivity loss in a mouse model of Alzheimer’s disease and track postnatal development of microglial distribution in the hippocampus. This work provides an efficient and accessible resource for visualizing hippocampal organization across development and disease, offering new opportunities to interrogate the structure and function of this important brain region.",
  "abstract_shown": true,
  "affiliations": [
    "Allen Institute for Brain Science, Seattle, WA, United States",
    "Department of Neuroscience and Experimental Therapeutics, College of Medicine, The Pennsylvania State University, Hershey, PA, United States",
    "Department of Anatomy and Neurobiology, School of Medicine, University of California, Irvine, Irvine, CA, United States",
    "University College London, London, United Kingdom",
    "International Brain Laboratory, University College London, London, United Kingdom",
    "Allen Institute for Neural Dynamics, Seattle, WA, United States",
    "University of Murcia, Murcia, Spain",
    "Center for Neural Engineering, The Pennsylvania State University, University Park, United States"
  ],
  "article_type": "research article",
  "arxiv": null,
  "author_total": 12,
  "authors": [
    {
      "affs": [
        0
      ],
      "name": "Ashwin Anirudha Bhandiwad",
      "orcid": "0000-0002-6963-1594"
    },
    {
      "affs": [
        1
      ],
      "name": "Fae Kronman"
    },
    {
      "affs": [
        1
      ],
      "name": "Josephine Liwang",
      "orcid": "0000-0003-2140-7048"
    },
    {
      "affs": [
        2
      ],
      "name": "Pan Gao",
      "orcid": "0009-0004-7883-6569"
    },
    {
      "affs": [
        3,
        4
      ],
      "name": "Cyrille Rossant",
      "orcid": "0000-0003-2069-9093"
    },
    {
      "affs": [
        4,
        5
      ],
      "name": "Daniel Birman",
      "orcid": "0000-0003-3748-6289"
    },
    {
      "affs": [
        6
      ],
      "name": "Luis Puelles",
      "orcid": "0000-0002-9541-7073"
    },
    {
      "affs": [
        0
      ],
      "name": "Song-Lin Ding",
      "orcid": "0000-0002-7072-5272"
    },
    {
      "affs": [
        2
      ],
      "name": "Xiangmin Xu"
    },
    {
      "affs": [
        0
      ],
      "name": "Lydia Ng"
    },
    {
      "affs": [
        1,
        7
      ],
      "name": "Yongsoo Kim",
      "orcid": "0000-0002-4277-0279"
    },
    {
      "affs": [
        0
      ],
      "name": "Tyler Mollenkopf"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/855knf5srv0n3.bib",
  "cited_by": 0,
  "doi": "10.1162/imag.a.1429",
  "fulltext_url": "https://pmc.ncbi.nlm.nih.gov/articles/PMC13736831/",
  "id": "855knf5srv0n3",
  "issns": [
    "2837-6056"
  ],
  "landing_url": "https://doi.org/10.1162/imag.a.1429",
  "language": "en",
  "licence": "CC-BY-4.0",
  "licence_label": "CC BY 4.0",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "heading",
      "Data Resource"
    ],
    [
      "openalex",
      "2805|Memory and Neural Mechanisms"
    ]
  ],
  "openalex": "W7221009804",
  "pdf_url": null,
  "pmcid": "PMC13736831",
  "pmid": "42991292",
  "published": "2026-11-04",
  "publisher": "MIT Press",
  "ris": "https://research.draconitic.com/paper/855knf5srv0n3.ris",
  "sources": [
    {
      "first_seen": "2026-11-09T12:22:12Z",
      "native_id": "PMC13736831",
      "source": "pmc",
      "url": "https://doi.org/10.1162/imag.a.1429"
    }
  ],
  "subjects": [
    {
      "field": "biology",
      "origin": "openalex:2805|Memory and Neural Mechanisms",
      "subfield": "neuroscience"
    }
  ],
  "title": "A curvilinear coordinate flatmap for visualizing hippocampal structure and development",
  "title_text": "A curvilinear coordinate flatmap for visualizing hippocampal structure and development",
  "type": "peer-reviewed",
  "updated_at": "2026-11-09T12:22:12Z",
  "url": "https://research.draconitic.com/paper/855knf5srv0n3",
  "venue": "Imaging Neuroscience",
  "versions": []
}