Evidence map›Paper›PMID 32989324›Full record

ArticleNature genetics2020

An integrated multi-omics approach identifies epigenetic alterations associated with Alzheimer's disease.

Raffaella Nativio, Yemin Lan, Greg Donahue, Simone Sidoli, Amit Berson, Ananth R Srinivasan, Oksana Shcherbakova, Alexandre Amlie-Wolf, Ji Nie, Xiaolong Cui and 6 more

Erratum issuedOpen access · greenAbstract read
In one paragraph

Article in Nature genetics, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 233 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
233citing papers in PubMed, 2 pooled it
15.2field-weighted citation impact, top 1% of its field
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

233 citing papers in PubMed, 2 syntheses or guidelines pooled it, 363 citations in OpenAlex.

  1. Pooled it
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  10. Sex-biased intron retention in Alzheimer's disease.Neural regeneration research · 2026
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173 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

16 authors at 4 institutions in 1 country.

Raffaella NativioDepartment of Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Yemin LanEpigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Greg DonahueDepartment of Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Simone SidoliEpigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID http://orcid.org/0000-0001-9073-6641
Amit BersonDepartment of Biology, University of Pennsylvania, Philadelphia, PA, USA.
Ananth R SrinivasanDepartment of Biology, University of Pennsylvania, Philadelphia, PA, USA.
Oksana ShcherbakovaDepartment of Biology, University of Pennsylvania, Philadelphia, PA, USA.ORCID http://orcid.org/0000-0001-7940-3256
Alexandre Amlie-WolfDepartment of Pathology & Laboratory Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID http://orcid.org/0000-0002-2073-1519
Ji NieDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, Howard Hughes Medical Institute, University of Chicago, Chicago, IL, USA.
Xiaolong CuiDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, Howard Hughes Medical Institute, University of Chicago, Chicago, IL, USA.
Chuan HeDepartment of Chemistry, Department of Biochemistry and Molecular Biology, and Institute for Biophysical Dynamics, Howard Hughes Medical Institute, University of Chicago, Chicago, IL, USA.ORCID http://orcid.org/0000-0003-4319-7424
Li-San WangDepartment of Pathology & Laboratory Medicine, University of Pennsylvania, Philadelphia, PA, USA.
Benjamin A GarciaEpigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.
John Q TrojanowskiDepartment of Pathology & Laboratory Medicine, University of Pennsylvania, Philadelphia, PA, USA.ORCID http://orcid.org/0000-0002-9239-8794
Nancy M BoniniDepartment of Biology, University of Pennsylvania, Philadelphia, PA, USA. nbonini@sas.upenn.edu.ORCID http://orcid.org/0000-0003-0226-5291
Shelley L BergerDepartment of Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA. bergers@pennmedicine.upenn.edu.ORCID http://orcid.org/0000-0001-5398-4400
University of Pennsylvania · USHoward Hughes Medical Institute · USAlbert Einstein College of Medicine · USPenn Center for AIDS Research · US

Funding

THE NIA GENETICS OF ALZHEIMER'S DISEASE DATA STORAGE SITEU24AG041689 · NIA · UNIVERSITY OF PENNSYLVANIA · PI LI-SAN WANG · 2012 to 2026
$42.3M
UPenn ADCC Biomarker CoreP30AG010124 · NIA · UNIVERSITY OF PENNSYLVANIA · PI DETRE, JOHN A · 1991 to 2020
$35.1M
Genome Center for Alzheimer's Disease (GCAD)U54AG052427 · NIA · UNIVERSITY OF PENNSYLVANIA · PI SCHELLENBERG, GERARD DAVID, WANG, LI-SAN · 2016 to 2025
$32.8M
STRUCTURAL BASIS FOR EPIGENETICS IN AGING AND LONGEVITYP01AG031862 · NIA · WISTAR INSTITUTE · PI ADAMS, PETER D. · 2008 to 2022
$28.3M
Shared Resources Core 2: Quantitative Proteomics CoreP01CA196539 · NCI · ROCKEFELLER UNIVERSITY · PI MUIR, TOM · 2015 to 2024
$17.6M
Training in Alzheimer’s and Age-Related Neurodegenerative DiseasesT32AG000255 · NIA · UNIVERSITY OF PENNSYLVANIA · PI ALICE S CHEN-PLOTKIN, VIRGINIA M LEE · 1997 to 2026
$12.5M
Labeling and sequencing of 5hmC and 5mC in DNA-RenewalR01HG006827 · NHGRI · UNIVERSITY OF CHICAGO · PI HE, CHUAN · 2012 to 2025
$7.2M
Molecular Genetic Insight into Neurodegenerative Disease from DrosophilaR35NS097275 · NINDS · UNIVERSITY OF PENNSYLVANIA · PI BONINI, NANCY M · 2017 to 2024
$6.0M
Viral modulation of epitranscriptomic mechanismsR01AI118891 · NIAID · WASHINGTON UNIVERSITY · PI GARCIA, BENJAMIN A, WEITZMAN, MATTHEW D. · 2015 to 2025
$5.4M
A Mass Spectrometry Approach to the Genetic and Epigenetic Mechanisms Controlling Neuronal IdentityR01NS111997 · NINDS · WEILL MEDICAL COLL OF CORNELL UNIV · PI DAHMANE, NADIA, GARCIA, BENJAMIN A · 2020 to 2024
$2.6M
Howard Hughes Medical InstituteNCI NIH HHS P01 CA196539NHGRI NIH HHS R01 HG006827NIAID NIH HHS R01 AI118891NIA NIH HHS P01 AG031862NIA NIH HHS P30 AG010124NIA NIH HHS T32 AG000255NIA NIH HHS U24 AG041689NIA NIH HHS U54 AG052427NINDS NIH HHS R01 NS111997NINDS NIH HHS R35 NS097275
6 · The paper itself

Abstract

Protein aggregation is the hallmark of neurodegeneration, but the molecular mechanisms underlying late-onset Alzheimer's disease (AD) are unclear. Here we integrated transcriptomic, proteomic and epigenomic analyses of postmortem human brains to identify molecular pathways involved in AD. RNA sequencing analysis revealed upregulation of transcription- and chromatin-related genes, including the histone acetyltransferases for H3K27ac and H3K9ac. An unbiased proteomic screening singled out H3K27ac and H3K9ac as the main enrichments specific to AD. In turn, epigenomic profiling revealed gains in the histone H3 modifications H3K27ac and H3K9ac linked to transcription, chromatin and disease pathways in AD. Increasing genome-wide H3K27ac and H3K9ac in a fly model of AD exacerbated amyloid-β42-driven neurodegeneration. Together, these findings suggest that AD involves a reconfiguration of the epigenome, wherein H3K27ac and H3K9ac affect disease pathways by dysregulating transcription- and chromatin-gene feedback loops. The identification of this process highlights potential epigenetic strategies for early-stage disease treatment.

Indexed as

AcetylationAlzheimer DiseaseAmyloid beta-PeptidesChromatinEpigenomeHistone AcetyltransferasesHistone CodeHistonesHumansPeptide FragmentsProtein Aggregation, PathologicalProteomeSignal TransductionTranscriptional ActivationTranscriptomeAmyloid beta-Peptidesamyloid beta-protein (1-42)ChromatinHistone AcetyltransferasesHistonesPeptide FragmentsProteome

Identifiers

PMID32989324
PMCPMC8098004
OpenAlexW3089451699

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

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.