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Series GSE25223 Query DataSets for GSE25223
Status Public on Nov 11, 2010
Title Atlas of gene expression in the mouse kidney
Organism Mus musculus
Experiment type Expression profiling by SAGE
Summary To gain molecular insight into kidney function, we performed a high-resolution quantitative analysis of gene expression in glomeruli and nine different nephron seg-ments dissected from mouse kidney using the long-SAGE method. We also developed dedicated bioinformatics tools and databases to annotate mRNA tags as transcripts. Over 800,000 mRNA SAGE tags were sequenced corresponding to >20,000 different mRNA tags present at least twice in at least one library. Hierarchical clustering analysis of tags demonstrated similarities between the three anatomical sub-segments of the proximal tubule, between the cortical and medullary segments of the thick ascending limb of Henle’s loop, and between the three segments constituting the aldosterone sensitive distal nephron segments, whereas the glomerulus and distal convoluted tubule clusterized independently. We also identified highly specific mRNA markers of each subgroup of nephron segments and of most nephron segments. Tag annotation also identified numbers of putative antisense mRNAs. This database constitutes a reference resource in which the quantitative expression of a given gene can be compared with that of other genes in the same nephron segment, or between different segments of the nephron. To illustrate possible applications of this database, we performed a deeper analysis of the glomerulus transcriptome which unexpectedly revealed expression of several ion and water carriers; within the glomerulus, they were found to be preferentially expressed in the parietal sheet. It also revealed the major role of the zinc finger transcription factor Wt1 in the specificity of gene expression in the glomerulus. Finally, functional annotation of glomerulus-specific transcripts showed the high proliferation activity of glomerular cells. Immunolabelling with anti-PCNA antibodies confirmed a high percentage of proliferating glomerular parietal cells.
Overall design Approximately 1000 tubules from each different nephron segments were microdissected from 6-8 male CD1 mice. Over 800,000 mRNA SAGE tags were sequenced corresponding to >20,000 different mRNA tags present at least twice in at least one library.
Contributor(s) Cheval L, Pierrat F, Dossat C, Genete M, Imbert-Teboul M, Duong van Huyen J, Poulain J, Wincker P, Weissenbach J, Piquemal D, Doucet A
Citation(s) 21081658
Submission date Nov 09, 2010
Last update date Apr 09, 2012
Contact name Lydie Cheval
Phone (33) 1 55 42 78 60
Fax (33) 1 46 33 41 72
Organization name Institut des Cordeliers
Lab UMR 872
Street address 15 rue de l'école de Médecine
City Paris
ZIP/Postal code 75270
Country France
Platforms (1)
GPL5119 SAGE:15:Sau3A:Mus musculus
Samples (10)
GSM619298 Kidney Glomerulus
GSM619299 Kidney Proximal Tubule, S1
GSM619300 Kidney Proximal Tubule, S2
BioProject PRJNA134461

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