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Effect of renal failure, sex, and BMP2 modulation on gene expression in mouse aorta

GSE308890 Mus musculus (mouse) RNA-seq (gene expression) 24 samples Submitted 2025/10/01 Platform GPL19057
At a glance

RNA-seq (gene expression) · mouse · 24 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
24 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)
Renal failure and male sex strongly predict cardiovascular disease. Understanding the impact of sex and kidney function on the biology of cardiovascular disease will clarify the differential presentation, progression, and response to treatments observed in each sex. Elucidating the molecular differences also may reveal new and effective therapeutic strategies.
Read the full summary ↓
Deficiency of KLOTHO promotes ectopic calcification of soft tissues such as aorta, aortic valves and kidneys. The rapid, synchronous onset of calcification particularly in the 129S1/SvlmJ (129) mouse strain facilitates molecular studies. (Kuro-o et al. Mutation of the mouse Klotho gene leads to a syndrome resembling ageing. Nature 390: 45-51, 1997; Salloum JS, Garsetti DE, Rogers MB. Genetic Background Influences the Impact of KLOTHO Deficiency. Physiological Genomics. 52, 512-516 (2020) We previously assessed microRNA gene expression differences associated with aorta calcification in healthy or Klotho deficient mice. (Tang Y, Shah TA, Yurkow EJ, Rogers MB. MicroRNA Profiles in Calcified and Healthy Aorta Differ: Therapeutic Impact of miR-145 and miR-378. Physiological Genomics. 52: 517–529, 2020) Here we used RNA seq to profile messenger RNAs in aortas from control (ctrl) healthy and Klotho homozygous deficient mice of both sexes with renal disease that causes aortic calcification. In addition, we profiled messenger RNAs in aortas from male mice bearing a Bone Morphogenetic Protein (BMP)2 regulatory mutation. BMP2 is a potent osteogenic factor involved in pathological vascular and valve calcification. The Bmp2 mutation (Bmp2∆UCS) is a 300 nucleotide deletion of an ultra-conserved sequence (UCS) in the 3’ untranslated region (UTR) of the Bmp2 gene. This sequence mediates a post-transcriptional block that prevents BMP2 synthesis in specific cell types, including the aortic valves, coronary vasculature, and aorta. (Shah, T.A., Y. Zhu, N.N. Shaikh, M.A. Harris, S.E. Harris, and M.B. Rogers, Characterization of new bone morphogenetic protein (Bmp)-2 regulatory alleles. Genesis, 2017. 55(7)). All experimental parameters (sex, kidney health, and BMP2 mutation) modulated mRNA profiles.
This dataset
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.

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 GSE308890_RAW.tar (it can run to tens of gigabytes).

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.

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 PRJNA1333335 and SRA study SRP625577. Searching any of these in the dataset finder brings you back here.

Samples in this study

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+ 24 more — browse all 24 samples with per-sample file links →

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