Evidence map›Paper›PMID 25437555›Full record

ArticleCell reports2014

Changes in nucleosome occupancy associated with metabolic alterations in aged mammalian liver.

Irina M Bochkis, Dariusz Przybylski, Jenny Chen, Aviv Regev

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell reports, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.

0numbers the graph read from it
0cells of the map it votes in
42citing papers in PubMed
2.1field-weighted citation impact, top 13% 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

42 citing papers in PubMed, 80 citations in OpenAlex.

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  5. Stem cell-based therapeutic strategies for liver aging.Liver research (Beijing, China) · 2025
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

4 authors at 2 institutions in 1 country.

Irina M BochkisBroad Institute of MIT and Harvard, Cambridge, MA 02142, USA. Electronic address: ibochkis@broadinstitute.org.
Dariusz PrzybylskiBroad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Jenny ChenBroad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Division of Health Sciences and Technology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA.
Aviv RegevBroad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Howard Hughes Medical Institute, Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Broad Institute · USMassachusetts Institute of Technology · US

Funding

Training Program in Bioinformatics and Integrative GenomicsT32HG002295 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Peter J Park · 2001 to 2026
$15.8M
Center for Cell CircuitsP50HG006193 · NHGRI · BROAD INSTITUTE, INC. · PI REGEV, AVIV · 2011 to 2015
$15.6M
Nucleosome architecture in aging and nuclear receptor activation in the liverK01DK101633 · NIDDK · UNIVERSITY OF VIRGINIA · PI BOCHKIS, IRINA · 2014 to 2018
$701k
Howard Hughes Medical InstituteNHGRI NIH HHS P50 HG006193NHGRI NIH HHS T32 HG002295NIDDK NIH HHS DK-101633NIDDK NIH HHS K01 DK101633
6 · The paper itself

Abstract

Aging is accompanied by physiological impairments, which, in insulin-responsive tissues, including the liver, predispose individuals to metabolic disease. However, the molecular mechanisms underlying these changes remain largely unknown. Here, we analyze genome-wide profiles of RNA and chromatin organization in the liver of young (3 months) and old (21 months) mice. Transcriptional changes suggest that derepression of the nuclear receptors PPARα, PPARγ, and LXRα in aged mouse liver leads to activation of targets regulating lipid synthesis and storage, whereas age-dependent changes in nucleosome occupancy are associated with binding sites for both known regulators (forkhead factors and nuclear receptors) and candidates associated with nuclear lamina (Hdac3 and Srf) implicated to govern metabolic function of aging liver. Winged-helix transcription factor Foxa2 and nuclear receptor corepressor Hdac3 exhibit a reciprocal binding pattern at PPARα targets contributing to gene expression changes that lead to steatosis in aged liver.

Indexed as

AgingAnimalsBase SequenceDNA-Binding ProteinsFatty LiverGene Expression Regulation, DevelopmentalHepatocyte Nuclear Factor 3-betaHistone Deacetylase 3Histone DeacetylasesInflammationLiverMaleMammalsMice, Inbred C57BLModels, BiologicalMolecular Sequence DataDNA-Binding ProteinsFoxa2 protein, mouseHepatocyte Nuclear Factor 3-betaHistone Deacetylase 3Histone DeacetylasesNucleosomesPPAR alphaTranscription FactorsZfp67 protein, mouse

Identifiers

PMID25437555
PMCPMC4250828
OpenAlexW2020049638

What OpenQuestion holds

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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.