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| Status |
Public on Sep 30, 2022 |
| Title |
RNAseq analysis to identify differential expressed genes in glomerular cDNA of diabetic DBA/2 mice with Esm1 over-expression |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We aim to study the gene expression changes in glomeruli of DBA/2 mice with diabetic nephropathy with or without Esm-1 over-expression. We extract pure mice glomeruli, prepared total cDNA with random hexamers and performed RNAseq study to quantify transcriptome and identify differential expressed genes. With a sequencing depth of 20M, we detected 12934 genes in total. We found many interferon related genes shows differences between control and DM group, suggesting DBA/2 mice with diabetic nephropathy are driven by interferon related mechanisms. We found 41 genes show biologically meaningful differences between DM and Esm-1 + DM group, suggesting these genes are downstream targets of Esm-1 in mice.
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| Overall design |
Quantify glomerular transcriptome changes with Illumina 1.9 in 10 weeks diabetes mice with or without Esm-1 over-expression.
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| Contributor(s) |
Zheng X, Higdon L, Gaudet A, Shah M, Balistieri A, Li C, Nadai P, Palaniappan L, Yang X, Santo B, Ginley B, Wang XX, Myakala K, Nallagatla P, Levi M, Sarder P, Rosenberg A, Maltzman JS, de Freitas Caires N, Bhalla V |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
May 24, 2021 |
| Last update date |
Sep 30, 2022 |
| Contact name |
Xiaoyi Zheng |
| E-mail(s) |
zhengxiaoyi2002cn@gmail.com
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| Organization name |
Stanford University
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| Department |
Med/Nephrology
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| Lab |
Vivek Bhalla
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| Street address |
1701 Page Mill Rd
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| City |
Palo Alto |
| State/province |
California |
| ZIP/Postal code |
94304 |
| Country |
USA |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (10)
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| Relations |
| BioProject |
PRJNA732414 |
| SRA |
SRP321169 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE175449_Processed_data_Normalized_Count.xlsx |
1.4 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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