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Series GSE60393 Query DataSets for GSE60393
Status Public on Oct 23, 2014
Title Changes in nucleosome occupancy associated with metabolic alterations in aged mammalian liver [ChIP-seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary 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 de-repression 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 for novel candidates associated with nuclear lamina (Hdac3 and Srf) implicated to govern metabolic function of aging liver. Winged-helix factor Foxa2 and nuclear receptor co-repressor Hdac3 exhibit reciprocal binding pattern at PPARα targets contributing to gene expression changes that lead to steatosis in aged liver.
Overall design Genome-wide location analysis (ChIP-Seq) of Foxa2 and Hdac3 from young (3 months) and old (21 months) mouse livers
Contributor(s) Bochkis I, Regev A
Citation(s) 25437555
Submission date Aug 13, 2014
Last update date May 15, 2019
Contact name Irina Bochkis
Phone 434-982-6752
Organization name University of Virginia
Department Pharmacology
Street address 1340 Jefferson Park Ave
City Charlottesville
State/province VA
ZIP/Postal code 22908
Country USA
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (8)
GSM1477605 Foxa2 young rep1
GSM1477606 Foxa2 young rep2
GSM1477607 Foxa2 21 old rep1
This SubSeries is part of SuperSeries:
GSE58006 Changes in nucleosome occupancy associated with metabolic alterations in aged mammalian liver
BioProject PRJNA258168
SRA SRP045482

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Supplementary file Size Download File type/resource
GSE60393_Foxa2_old.bed.gz 175.9 Kb (ftp)(http) BED
GSE60393_Foxa2_young.bed.gz 89.3 Kb (ftp)(http) BED
GSE60393_Hdac3_old.bed.gz 40.5 Kb (ftp)(http) BED
GSE60393_Hdac3_young.bed.gz 72.8 Kb (ftp)(http) BED
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