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Cited by 16Alzheimer's disease research and treatmentsBioinformatics and Genomic NetworksDementia and Cognitive Impairment Research

ADAS-viewer: web-based application for integrative analysis of multi-omics data in Alzheimer’s disease

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Han, Seonggyun, Shin, Jaehang, Jung, Hyeim, Ryu, Jane, Minassie, Habtamu, Nho, Kwangsik, Koh, Insong, Lee, Younghee·2021·npj Systems Biology and Applications
DOI 10.1038/s41540-021-00177-7PMC PMC7979890
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Abstract

Abstracts: Alzheimer’s disease (AD) is a neurodegenerative disorder and is represented by complicated biological mechanisms and complexity of brain tissue. Our understanding of the complicated molecular architecture that contributes to AD progression benefits from performing comprehensive and systemic investigations with multi-layered molecular and biological data from different brain regions. Since recently different independent studies generated various omics data in different brain regions of AD patients, multi-omics data integration can be a useful resource for better comprehensive understanding of AD. Here we present a web platform, ADAS-viewer, that provides researchers with the ability to comprehensively investigate and visualize multi-omics data from multiple brain regions of AD patients. ADAS-viewer offers means to identify functional changes in transcript and exon expression (i.e., alternative splicing) along with associated genetic or epigenetic regulatory effects. Specifically, it integrates genomic, transcriptomic, methylation, and miRNA data collected from seven different brain regions (cerebellum, temporal cortex, dorsolateral prefrontal cortex, frontal pole, inferior frontal gyrus, parahippocampal gyrus, and superior temporal gyrus) across three independent cohort datasets. ADAS-viewer is particularly useful as a web-based application for analyzing and visualizing multi-omics data across multiple brain regions at both transcript and exon level, allowing the identification of candidate biomarkers of Alzheimer’s disease.

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  • ADAS-Viewer enables the identification of region-specific transcriptomic and epigenetic alterations associated with AD onset and progression.

    “Platforms such as ADAS-Viewer exemplify the potential of spatially resolved omics analysis, enabling the identification of region-specific transcriptomic and epigenetic alterations associated with AD onset and progression330.”

    From Artificial intelligence-driven multi-omics approaches in Alzheimer's disease: Progress, challenges, and future directions (2025) · cites this paper as [330]

    The Results (Fig. 1 caption; page not supplied) describe region-specific transcript expression in normal and AD groups, and the Results and Discussion describe analyses of methylation and disease severity. However, the Methods > Data section (page not supplied) says epigenetic data came only from the dorsolateral prefrontal cortex. The paper does not establish that ADAS-viewer identifies epigenetic alterations across regions or alterations associated specifically with AD onset; its regional comparisons are not spatially resolved omics measurements. (LLM, conf=0.85)

    Experimental — accuracy not yet measured

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Cited by

Sorted by citations

Authors
Han, S., Shin, J., Jung, H., Ryu, J., Minassie, H., Nho, K., Koh, I., & Lee, Y.
Affiliations
  • University of Utah (US)
  • Indiana University Indianapolis (US)
  • Hanyang University (KR)
Corresponding author
Lee, Younghee
ORCID
Venue
npj Systems Biology and Applications
Publisher
Springer Science and Business Media LLC
Published
2021-03-19
Volume
7
Issue
1
Pages
18-18
ISSN
2056-7189 (ISSN-L)
DOI
10.1038/s41540-021-00177-7
PMC
PMC7979890
OpenAlex
W3137114858
Cited by
16
References
3
Citations by year
2026: 1 · 2025: 5 · 2024: 4 · 2023: 2 · 2022: 3 · 2021: 1
FWCI
1.57
Type
journal article
Language
en
Open access
Licence
Locations
  • npj Systems Biology and Applications (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
  • IUScholarWorks (Indiana University) (submittedVersion, cc-by)
Funders
  • University of Utah
  • National Research Foundation
  • Iran Telecommunication Research Center
  • Ministry of Science and ICT, South Korea (IITP-2018-2018-0-01833, IITP-2018, NRF-2017M3C9A6047623)
  • School of Medicine
  • Institute for Information and Communications Technology Promotion
  • National Institute on Aging (R03AG063250, R03AG054936)
  • U.S. National Library of Medicine (R01LM012535)
Topics
  • Health Sciences › Medicine › Physiology › Alzheimer's disease research and treatments
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
  • Health Sciences › Medicine › Psychiatry and Mental health › Dementia and Cognitive Impairment Research
Keywords
Alzheimer's disease, multi-omics integration, web-based data visualization, brain regions, transcript expression, exon expression, alternative splicing, DNA methylation, microRNA, epigenetic regulation, biomarkers, cerebellum, temporal cortex, prefrontal cortex, parahippocampal gyrus, superior temporal gyrus
MeSH terms
Dorsolateral Prefrontal Cortex, Alzheimer Disease, Brain, Humans, Internet, Genomics

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