Evidence map›Paper›PMID 40344336›Full record

ArticleAlzheimer's & dementia : the journal of the Alzheimer's Association2025

Comparative mapping of single-cell transcriptomic landscapes in neurodegenerative diseases.

E Keats Shwab, Zhaohui Man, Daniel C Gingerich, Julia Gamache, Melanie E Garrett, Geidy E Serrano, Thomas G Beach, Gregory E Crawford, Allison E Ashley-Koch, Ornit Chiba-Falek

Abstract readComparative Study
In one paragraph

Article in Alzheimer's & dementia : the journal of the Alzheimer's Association, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

7 citing papers in PubMed.

  1. Distinct single-nucleus RNA-seq changes among non-neuronal cells in ADNC, LATE-NC, and mixed pathologies.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2026
    Article
  2. Article
  3. Article
  4. Review
  5. Comparative mapping of single-cell transcriptomic landscapes in neurodegenerative diseases.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2025
    Article
  6. Review
  7. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

E Keats ShwabDivision of Translational Brain Sciences, Department of Neurology, Duke University Medical Center, Durham, North Carolina, USA.ORCID 0000-0002-8383-1031
Zhaohui ManDivision of Translational Brain Sciences, Department of Neurology, Duke University Medical Center, Durham, North Carolina, USA.ORCID 0000-0003-2537-1425
Daniel C GingerichDivision of Translational Brain Sciences, Department of Neurology, Duke University Medical Center, Durham, North Carolina, USA.ORCID 0009-0008-9886-9391
Julia GamacheDivision of Translational Brain Sciences, Department of Neurology, Duke University Medical Center, Durham, North Carolina, USA.ORCID 0000-0002-3750-147X
Melanie E GarrettDuke Molecular Physiology Institute, Duke University Medical Center, Durham, North Carolina, USA.ORCID 0000-0003-2302-6150
Geidy E SerranoBanner Sun Health Research Institute, Sun City, Arizona, USA.ORCID 0000-0002-9527-2011
Thomas G BeachBanner Sun Health Research Institute, Sun City, Arizona, USA.ORCID 0000-0003-3296-6128
Gregory E CrawfordCenter for Genomic and Computational Biology, Duke University Medical Center, Durham, North Carolina, USA.ORCID 0000-0001-6106-2772
Allison E Ashley-KochDuke Molecular Physiology Institute, Duke University Medical Center, Durham, North Carolina, USA.ORCID 0000-0001-5409-9155
Ornit Chiba-FalekDivision of Translational Brain Sciences, Department of Neurology, Duke University Medical Center, Durham, North Carolina, USA.ORCID 0000-0002-2529-8785

Funding

Research Education ComponentP30AG019610 · NIA · SUN HEALTH RESEARCH INSTITUTE · PI REIMAN, ERIC MICHAEL · 2001 to 2020
$32.5M
Research Education ComponentP30AG072980 · NIA · BANNER HEALTH · PI ALIREZA ATRI · 2021 to 2026
$24.9M
NEUROPATHOLOGY COREP30AG028377 · NIA · DUKE UNIVERSITY · PI WELSH-BOHMER, KATHLEEN ANNE · 2006 to 2011
$9.6M
National Brain and Tissue Resource for Parkinson's Disease and Related DisordersU24NS072026 · NINDS · BANNER SUN HEALTH RESEARCH INSTITUTE · PI BEACH, THOMAS G · 2011 to 2015
$7.8M
Lewy body neuropathologies and SNCA gene: variants expression and splicingRF1NS113548 · NINDS · DUKE UNIVERSITY · PI CHIBA-FALEK, ORNIT · 2020 to 2020
$3.8M
Deciphering the regulation of gene expression in the etiology of LOADR01AG057522 · NIA · DUKE UNIVERSITY · PI CHIBA-FALEK, ORNIT, LUTZ, MICHAEL WILLIAM · 2017 to 2021
$3.6M
Untangling the diversity in the genetic architecture of late-onset Alzheimer's disease using single cell multi-omicsRF1AG077695 · NIA · DUKE UNIVERSITY · PI CHIBA-FALEK, ORNIT · 2022 to 2022
$2.3M
Body Donation Program of Sun CityNational Institute of neurological disorders and stroke (NINDS)/NIH RF1-NS113548-01A1NIA NIH HHS P30 AG019610NIA NIH HHS P30 AG028377NIA NIH HHS P30 AG072980NIA NIH HHS R01 AG057522NIA NIH HHS RF1 AG077695NINDS NIH HHS RF1 NS113548NINDS NIH HHS U24 NS072026
6 · The paper itself

Abstract

introductionAlzheimer's disease (AD), dementia with Lewy bodies (DLB), and Parkinson's disease (PD) represent a spectrum of neurodegenerative diseases (NDDs). Here, we performed the first direct comparison of their transcriptomic landscapes.

methodsWe profiled whole transcriptomes of NDD cortical tissue by single-nucleus RNA sequencing, using computational analyses to identify common and distinct differentially expressed genes (DEGs), pathways, vulnerable and disease-driver cell subtypes, and altered cell-to-cell interactions.

resultsThe same inhibitory neuron subtype was depleted in both AD and DLB. Potentially disease-driving neuronal cell subtypes were identified in both PD and DLB. Cell-cell communication was predicted to be increased in AD but decreased in DLB and PD. DEGs were most commonly shared across NDDs within inhibitory neuron subtypes. Overall, AD and PD showed greatest transcriptomic divergence, while DLB exhibited an intermediate signature. DISCUSSION: These results may help explain the clinicopathological spectrum of these NDDs and provide unique insights into shared and distinct molecular mechanisms underlying pathogenesis. HIGHLIGHTS: The same vulnerable inhibitory neuron subtype population was depleted in both Alzheimer's disease (AD) and dementia with Lewy bodies (DLB). Potentially disease-driving neuronal cell subtypes were discovered in both Parkinson's disease (PD) and DLB. Cell-cell communication was predicted to be increased in AD but decreased in DLB and PD. Differentially expressed genes were most commonly shared across neurodegenerative diseases in inhibitory neuron types. AD and PD had the greatest transcriptomic divergence, with DLB showing an intermediate signature.

Indexed as

Alzheimer DiseaseLewy Body DiseaseNeurodegenerative DiseasesParkinson DiseaseTranscriptomeAgedFemaleGene Expression ProfilingHumansMaleNeuronsSequence Analysis, RNASingle-Cell AnalysisAlzheimer's diseasecell communicationcomparativedementia with Lewy bodiesParkinson's diseasesingle‐nucleus RNA sequencingsynucleopathiestranscriptomicsvulnerable cell types

Identifiers

PMID40344336
PMCPMC12061851

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.