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Cited by 165Alzheimer's disease research and treatmentsDementia and Cognitive Impairment ResearchAdvanced Proteomics Techniques and Applications

Integrated proteomics and network analysis identifies protein hubs and network alterations in Alzheimer’s disease

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Zhang, Qi, Ma, Cheng, Gearing, Marla, Wang, Peng George, Chin, Lih-Shen, Li, Lian·2018·Acta Neuropathologica Communications
DOI 10.1186/s40478-018-0524-2PMC PMC5831854
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Abstract

Although the genetic causes for several rare, familial forms of Alzheimer's disease (AD) have been identified, the etiology of the sporadic form of AD remains unclear. Here, we report a systems-level study of disease-associated proteome changes in human frontal cortex of sporadic AD patients using an integrated approach that combines mass spectrometry-based quantitative proteomics, differential expression analysis, and co-expression network analysis. Our analyses of 16 human brain tissues from AD patients and age-matched controls showed organization of the cortical proteome into a network of 24 biologically meaningful modules of co-expressed proteins. Of these, 5 modules are positively correlated to AD phenotypes with hub proteins that are up-regulated in AD, and 6 modules are negatively correlated to AD phenotypes with hub proteins that are down-regulated in AD. Our study generated a molecular blueprint of altered protein networks in AD brain and uncovered the dysregulation of multiple pathways and processes in AD brain, including altered proteostasis, RNA homeostasis, immune response, neuroinflammation, synaptic transmission, vesicular transport, cell signaling, cellular metabolism, lipid homeostasis, mitochondrial dynamics and function, cytoskeleton organization, and myelin-axon interactions. Our findings provide new insights into AD pathogenesis and suggest novel candidates for future diagnostic and therapeutic development.

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  • The WAVE1 gene has been suggested as an AD-associated hub gene from studies of AD mouse models or human AD brains.

    “The WAVE1 gene has also been suggested as an AD-associated hub gene from studies of AD mouse models148 or human AD brains149.”

    From The WAVE complex in developmental and adulthood brain disorders (2025) · cites this paper as [149]

    In the Results section on AD-associated network modules (page not provided), the paper lists WASF1 (WAVE1) among proteins in an AD-associated module from human brain samples. It identifies other proteins—not WASF1—as that module’s top hubs, so it does not establish WAVE1 as a hub gene. (LLM, conf=0.83)

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Authors
Zhang, Q., Ma, C., Gearing, M., Wang, P. G., Chin, L.-S., & Li, L.
Affiliations
  • Emory University (US)
  • Georgia State University (US)
Corresponding author
  • Chin, Lih-Shen
  • Li, Lian
ORCID
Venue
Acta Neuropathologica Communications
Publisher
Springer Science and Business Media LLC
Published
2018-03-01
Volume
6
Issue
1
Pages
19-19
ISSN
2051-5960 (ISSN-L)
DOI
10.1186/s40478-018-0524-2
PMC
PMC5831854
OpenAlex
W2795057010
Cited by
165
References
11
Citations by year
2026: 20 · 2025: 14 · 2024: 19 · 2023: 23 · 2022: 21 · 2021: 22 · 2020: 24 · 2019: 19 · 2018: 2
FWCI
11.13
Type
journal article
Language
en
Open access
Licence
Locations
  • Acta Neuropathologica Communications (publishedVersion, cc-by)
  • Europe PMC (PubMed Central) (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
Funders
  • National Institutes of Health (GM103613, NS092343, NS093550, P50 AG025688, P30 NS055077)
  • Emory University Research Committee
  • Atlanta Clinical and Translational Science Institute
Topics
  • Health Sciences › Medicine › Physiology › Alzheimer's disease research and treatments
  • Health Sciences › Medicine › Psychiatry and Mental health › Dementia and Cognitive Impairment Research
  • Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
Keywords
Alzheimer's disease, sporadic Alzheimer's disease, protein co-expression networks, hub proteins, proteostasis, RNA homeostasis, neuroinflammation, synaptic transmission, mitochondrial dynamics, lipid homeostasis, pathogenesis
MeSH terms
Aged, Aged, 80 and over, Alzheimer Disease, Chromatography, Liquid, Female, Frontal Lobe, Humans, Male, Middle Aged, Blotting, Western, Cluster Analysis, Proteome, Proteomics, Tandem Mass Spectrometry

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