GSE142025: Comparison of Kidney Transcriptomic Profiles of Early and Advanced Diabetic Nephropathy Reveals Potential New Mechanisms for Disease Progression

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GROUP CONDITION SAMPLES
kidney biopsy
GSM4217802 GSM4217803 GSM4217804 GSM4217805 GSM4217806 GSM4217807
GSM4217781 GSM4217782 GSM4217783 GSM4217784 GSM4217785 GSM4217786 GSM4217787 GSM4217788 GSM4217789 GSM4217790 GSM4217791 GSM4217792 GSM4217793 GSM4217794 GSM4217795 GSM4217796 GSM4217797 GSM4217798 GSM4217799 GSM4217800 GSM4217801
GSM4217808 GSM4217809 GSM4217810 GSM4217811 GSM4217812 GSM4217813 GSM4217814 GSM4217815 GSM4217816
Description

Submission Date: Dec 13, 2019

Summary: To identify the factors mediating the progression of di- abetic nephropathy (DN), we performed RNA sequencing of kidney biopsy samples from patients with early DN, advanced DN, and normal kidney tissue from nephrectomy samples. A set of genes that were upregulated at early but downregulated in late DN were shown to be largely renoprotective, which included genes in the retinoic acid pathway and glucagon-like peptide 1 receptor. Another group of genes that were downregulated at early but highly upregulated in advanced DN consisted mostly of genes associated with kidney disease pathogenesis, such as those related to immune response and fibrosis. Correlation with estimated glomerular filtration rate (eGFR) identified genes in the pathways of iron transport and cell differentiation to be positively associated with eGFR, while those in the immune response and fibrosis pathways were negatively associated. Correlation with various histopathological features also identified the association with the distinct gene ontological pathways. Deconvolution analysis of the RNA sequencing data set indicated a significant increase in monocytes, fibroblasts, and myofibroblasts in advanced DN kidneys. Our study thus provides potential molecular mechanisms for DN progression and association of differential gene expression with the functional and structural changes observed in patients with early and advanced DN.

GEO Accession ID: GSE142025

PMID: 31578193

Description

Submission Date: Dec 13, 2019

Summary: To identify the factors mediating the progression of di- abetic nephropathy (DN), we performed RNA sequencing of kidney biopsy samples from patients with early DN, advanced DN, and normal kidney tissue from nephrectomy samples. A set of genes that were upregulated at early but downregulated in late DN were shown to be largely renoprotective, which included genes in the retinoic acid pathway and glucagon-like peptide 1 receptor. Another group of genes that were downregulated at early but highly upregulated in advanced DN consisted mostly of genes associated with kidney disease pathogenesis, such as those related to immune response and fibrosis. Correlation with estimated glomerular filtration rate (eGFR) identified genes in the pathways of iron transport and cell differentiation to be positively associated with eGFR, while those in the immune response and fibrosis pathways were negatively associated. Correlation with various histopathological features also identified the association with the distinct gene ontological pathways. Deconvolution analysis of the RNA sequencing data set indicated a significant increase in monocytes, fibroblasts, and myofibroblasts in advanced DN kidneys. Our study thus provides potential molecular mechanisms for DN progression and association of differential gene expression with the functional and structural changes observed in patients with early and advanced DN.

GEO Accession ID: GSE142025

PMID: 31578193

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