GEO series

Severe Attenuation of Circadian Clock Output in the Heart following Sustained Augmentation of Cardiomyocyte Protein O-GlcNAcylation

GSE301657 Mus musculus (mouse) RNA-seq (gene expression) 60 samples Submitted 2025/07/07 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 60 samples

What it is: RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism: Mus musculus (mouse)
Samples: 60 samples
Data you can get: A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.

Summary (written by the submitters)

Background. Changes in circadian-related behaviors (e.g., the timing of food intake, sleep cycles) and the environment (e.g., light-dark cycles) increase the risk of numerous cardiometabolic diseases, including diabetes mellitus and cardiac disease. Recent studies indicate a close interrelationship between circadian clocks and the posttranslational modification, protein O-GlcNAcylation.

Read the full summary ↓

The current study was designed to investigate whether a modest elevation of protein O-GlcNAcylation in the adult mouse heart, similar to levels observed during pathologic states, influenced circadian governance of the heart. Methods and Results. Cardiomyocyte-specific expression of a dominant negative O-GlcNAcase (dnOGAh) for a 2-week period resulted in an approximate 1.5-fold increase in cardiac protein O-GlcNAcylation, impacting 70% of core circadian clock components in the heart at the mRNA level. Further interrogation of cardiac mRNA species in dnOGAh hearts at candidate (RT-PCR) and unbiased (RNAseq) levels revealed a 95% loss of circadian governance of the cardiac transcriptome. This was despite persistent/augmented 24hr oscillations of the core circadian clock proteins BMAL1, REVERB, and PER2 in dnOGAh hearts. Direct comparison of dnOGAh hearts with cardiomyocyte-specific BMAL1 knockout (CBK) hearts underscored an apparent uncoupling of the core clock mechanism from clock control of downstream target genes in dnOGAh hearts, and highlighted that loss of circadian governance results in interstitial fibrosis. Conclusions. Sustained protein O-GlcNAcylation in the heart causes loss of circadian governance, likely downstream of the core circadian clock mechanism. Moreover, interstitial fibrosis appears to be a universal adverse outcome following impaired circadian governance.

This dataset

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Download · which file do I need?

Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE301657_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1285934 and SRA study SRP598153. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Samples in this study

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+ 60 more — browse all 60 samples with per-sample file links →

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