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01 Program

NeuroMAP

Neurological Mapping and Phenotyping · The Ohio State University

NeuroMAP (Neurological Mapping and Phenotyping) is a transformative precision neuroscience initiative at The Ohio State University that integrates longitudinal clinical phenotyping with state-of-the-art molecular, imaging, and computational technologies to define the biological basis of neurological and psychiatric disease, discover biomarkers that predict disease progression and therapeutic response, and identify personalized therapeutic targets.

Participants are followed prospectively with serial blood and cerebrospinal fluid biomarkers, advanced neuroimaging, optical coherence tomography, neurological and neuropsychological assessments, and detailed clinical outcome measures, and may elect to donate tissues after death through NeuroCAPTURE, a rapid neuro-autopsy program that provides exceptionally high-quality central nervous system and peripheral tissues for research.

The defining feature of NeuroMAP is its ability to connect each participant's clinical journey during life with the molecular and cellular architecture of disease revealed after death, creating an unprecedented opportunity to determine how biomarkers, imaging findings, genetics, environmental exposures, and clinical progression reflect the underlying biology of human disease.

Human brain viewed from above. The left hemisphere is shown as anatomy; the right is divided into four bands showing white-matter tractography, a functional heat map, cleared vasculature, and fluorescence-labelled cells. Annotated left and right.
02 Platforms

Five integrated discovery platforms
drive the program.

01

COMPASS tracks participants longitudinally, combining clinical and cognitive assessment, biospecimen collection, neuroimaging, retinal optical coherence tomography, and wearable-device monitoring into a single multimodal clinical phenotype.

02

NeuroCAPTURE is a rapid neuro-specific autopsy program that provides exceptionally high-quality tissue from the central nervous system and peripheral organs for research.

03

NeuroATLAS creates high-resolution three-dimensional cellular maps using tissue clearing, light-sheet microscopy, and custom machine and deep learning powered software.

04

NeuroCODEX performs comprehensive multimodal spatial molecular profiling to define the transcriptomic signatures and proteomic phenotype on a single cell level.

05

NeuroMODEL develops patient-derived iPSC and organoid models to validate biological discoveries and accelerate precision therapeutics.

03 Leadership
Benjamin Segal
Executive Lead
Benjamin Segal, MD

Chair, Department of Neurology
Director, Neuroscience Research Institute
Co-director, Neurological Institute

Neuroscience Research Institute ↗ Segal Lab ↗
W. Thomas Whitlow
Administrative Lead
W. Thomas Whitlow, MPH, CCRP

Director, Clinical and Translational Research

Neurological Institute research ↗
Krishna L. Bharani
Director NeuroCAPTURE
Krishna L. Bharani, MD, PhD

Neuropathologist, Neuroscientist

Pathology profile ↗
Luke Hammond
Director NeuroATLAS
Luke Hammond

Director, Quantitative Imaging

Quantitative Imaging ↗
Oscar Harari
Director NeuroCODEX
Oscar Harari, PhD

Director, Neurobiology of Aging & Resilience Center
Director, Division of Neurogenetics

Harari Lab ↗
Erica Bell
Director NeuroMODEL
Erica Bell, PhD

Associate Director, Neuroscience Research Institute

NRI Brain Bank ↗
04 Key collaborators
Nina Kraguljac
Nina Kraguljac, MD, MA

Director, Center for Neuroimaging, Neurophenotyping, Neurocomputation and Neuromodulation (C4N)

C4N ↗
Stacey S. Choi
Stacey S. Choi, PhD

College of Optometry
Department of Ophthalmology & Visual Science

Choi-Doble Laboratory ↗
Qin Ma
Qin Ma, PhD

Vice Chair of Research,
Department of Biomedical Informatics

BMBL ↗
Nathan Doble
Nathan Doble, PhD

College of Optometry
Department of Ophthalmology & Visual Science

Choi-Doble Laboratory ↗
05 Workflow

From the clinic to sub-cellular detail.

The COMPASS longitudinal protocol shown as eight linked stages: study entry, clinical evaluation, cognitive and functional assessments, biospecimen collection of blood, saliva, cerebrospinal fluid and skin biopsy, neuroimaging by MRI and PET, retinal optical coherence tomography, actigraphy by wearable device, and outcomes with longitudinal follow-up.
COMPASS follows each participant prospectively, combining clinical and cognitive assessment, serial biospecimens, neuroimaging, retinal optical coherence tomography and wearable-device monitoring into one multimodal clinical phenotype that later tissue analysis is aligned to.

Conceptual plan for the NeuroMAP pipeline.

The NeuroMAP program end to end, across seven numbered stages: clinical tracking, neuroautopsy, hemisphere MRI, slab banking, multimodal sampling, integrated maps and AI/ML integration. Participants are followed longitudinally under COMPASS with clinical assessments, physiological monitoring, longitudinal measurements, and biospecimens and molecular data. Rapid neuroautopsy at a 4 to 6 hour post-mortem interval divides the brain into hemispheres; one is scanned by MRI and cut into alternating 6 millimetre coronal slabs yielding banked frozen tissue and targeted blocks, and the contralateral hemisphere follows the same route. Retinal optical coherence tomography is collected under ophthalmology. Matched peripheral tissues are collected in parallel under NeuroCAPTURE: retina, lymphatics, meninges, intestinal mucosa, spinal cord and dorsal root ganglia, and skin. Under NeuroMODEL, somatic cells are reprogrammed to patient-specific iPSCs and differentiated into brain organoids. Aligned sections feed three imaging streams: multiplexed 3D light-sheet microscopy of 1 to 2 millimetre sections and intact tissue under NeuroATLAS, spatial proteomics of 10 micrometre sections under NeuroCODEX, and spatial transcriptomics of 10 micrometre sections. The seven stages are grouped into colour-banded columns across the top of the diagram. These converge into cellular and molecular maps and cross-organ analysis, which bioinformaticians integrate under biomedical informatics for AI-powered data integration, multi-scale modeling and analysis, predictive insights and hypothesis generation, and interactive exploration and visualization.
NeuroMAP sample and data pipeline. Click on the image to view at full resolution.

Conceptual plan for the NeuroMAP pipeline.

NeuroMAP extends beyond the brain and spinal cord to the interconnected systems that shape or reflect nervous system disease.

  • Neuroimmune, gut-brain and peripheral systems: retina, meninges, cervical lymph nodes, skin, intestinal mucosa and other organs
  • Across Alzheimer's disease, Parkinson's disease, ALS, multiple sclerosis, schizophrenia and related conditions
  • AI integrates clinical course, genetics, environmental exposures, imaging and biomarkers from life with the spatial, cellular and molecular architecture revealed after death
  • The blueprint spans the entire course of illness, from the earliest biological changes to end-stage pathology
Three-step workflow: MRI-informed selection of a coronal plane through a whole brain, the resulting coronal slice, and that slice imaged by light-sheet microscopy with cellular structures resolved in multiple colours.
MRI imaging is used to inform the selection of an intact coronal hemisphere section, this section is then cleared, labeled, and imaged using light-sheet microscopy, with contiguous regions imaged using complementary light microscopy and spatial omics.

Conceptual plan for the NeuroMAP pipeline.

Three-step sampling scheme: nine numbered sampling regions arranged across one hemisphere for Alzheimer's disease neuropathology sampling, a single ten by five millimetre block isolated from it, and an aligned sectioning scheme collecting eight sections in order — two 10 micrometre sections for highly multiplexed immunofluorescence, two 10 micrometre sections for spatial transcriptomics and proteomics, two 1 millimetre sections for subcellular 3D light sheet microscopy of intact tissue, and two further 10 micrometre sections for spatial transcriptomics and proteomics.
Targeted blocks excised from coronal hemisphere slabs. Highly multiplexed immunofluorescence, spatial transcriptomics and proteomics, and subcellular 3D light sheet microscopy of intact tissue performed on contiguous sections and aligned to a common coordinate framework.

Conceptual plan for the NeuroMAP pipeline.

Twenty regions sampled throughout the brain are consolidated into five blocks of four, then sectioned and imaged using multiple modalities by NeuroATLAS and NeuroCODEX. Based on condensed protocol: Multz et al., J Neuropathol Exp Neurol 2023 ↗

Conceptual plan for the NeuroMAP pipeline.

Brain model derived from MRI by Nevit Dilmen, NIH 3D 3DPX-002739, used under CC BY 4.0.

Two panels of highly multiplexed immunofluorescence in human brain tissue, imaged on the NeuroCODEX platform. The left panel overlays DAPI-labelled nuclei in blue with amyloid-beta in magenta, ApoE in yellow and several phospho-tau channels, resolving dense neuritic plaques, one of which is arrowed. The right panel overlays a glial channel set of DAPI, ApoE, HLA-A, myelin basic protein, Olig-2 and vimentin, with arrows marking an astrocyte, an oligodendrocyte precursor cell and microglia among the same pathology. Both panels carry a 30 micrometre scale bar.
NeuroCODEX resolves plaques and associated cells in the same tissue section: amyloid-beta, ApoE and phospho-tau highlight dense neuritic plaques, while a glial channel set resolves astrocytes, oligodendrocyte precursor cells, and microglia around them. Scale bars 30 µm.

Oscar Harari and Ayslan Castro Brant, 2026.

06 Analysis

Deep-learning enabled 3D tissue analysis.

Individually isolated microglial cell, reconstructed in 3D, with color representing depth. A second individually isolated microglial cell, reconstructed in 3D, with color representing depth.
Deep-learning-based morphological characterization of microglia associated with amyloid plaques.

Animation shows optical sections at different depths revealing microglia populating the brain tissue and in proximity to amyloid plaques. Panels on the right show individually isolated microglia, with color representing depth.

Luke Hammond (Dept. Neurology) and Jie Gao (Dept. Neuroscience), 2024.

07 Integration

A digital blueprint of each disease.

Distinctively, NeuroMAP extends beyond the brain and spinal cord to investigate interconnected neuroimmune, gut-brain, and peripheral organ systems—including the retina, meninges, cervical lymph nodes, skin, intestinal mucosa, and other organs that shape or reflect nervous system disease.

Across disorders such as Alzheimer's disease, Parkinson's disease, amyotrophic lateral sclerosis, multiple sclerosis, schizophrenia, and related conditions, artificial intelligence will integrate every layer of information—from clinical course, genetics, environmental exposures, imaging, and biomarkers collected during life to the spatial, cellular, and molecular architecture revealed after death—creating an integrated digital blueprint of each disease that spans the entire course of illness—from the earliest biological changes to end-stage pathology.

By seamlessly linking clinical trajectories with the cellular and molecular architecture of disease, NeuroMAP will redefine our understanding of disease heterogeneity, reveal biomarkers that predict pathology, progression, and treatment response, uncover novel therapeutic targets, and establish a new paradigm for precision neuroscience that transforms the diagnosis, prevention, and treatment of neurological and psychiatric disease.

Website Developed by Luke Hammond