Gene expression data from mouse inner medullary collecting duct cells expressing wild type ILK and missense variant T173I
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PROVIDER: PRJNA484182 | ENA |
REPOSITORIES: ENA
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Project description:Identification of gene expressed in the enriched inner medullary collecting duct cells in rat. Experiment Overall Design: Rat inner medullary collecting duct (IMCD) cells were isolated from 7 male Sprage-Dawley rats by collagenase and hyaluronidase digestion and follow by low speed centrifugation. The non-IMCD cells were collected by centrifugation of supernatant of enriched IMCD samples. Experiment Overall Design: Total RNA about 3 ug were used per microarray (Rat 230 2.0 Genechip array). Experiment Overall Design: The experiments were repeat 3 times (3 pairs of IMCD VS non-IMCD)
2008-06-15 | E-GEOD-7891 | biostudies-arrayexpress
Project description:Identification of gene expressed in the enriched inner medullary collecting duct cells in rat. Keywords: gene expression comparision between cell type
2007-12-21 | GSE7891 | GEO
Project description:The affect of aldosterone on the miRNA landscape in mIMCD-3 cells was determined In the study presented here, the affect of aldosterone was examined on the miRNA content in a murine inner medullary collecting duct cell line
2014-05-31 | E-GEOD-47901 | biostudies-arrayexpress
Project description:Purpose: The goal of this study is to identify doxycycle-responsive genes in mouse kidney inner medullary collecting duct cell line mIMCD3. To explore compreshensive profile of doxycycline-mediated gene expression, transcriptomes of doxycycline-responsive genes at two different time points (3 days and 6 days) were profiled and analyzed. Methods: Total RNAs were isolated from mIMCD3 cells treated with doxycycline or vehicle at different time points (3 days and 6 days). Four replicates for vehicle- or doxycycline-treated group were generated at each tested time point. cDNA libraries were prepared using a Nextera DNA library preparation protocol. The sequence reads from Illumina HiSeq3000 platform were qualified and quantified at the transcript level using Salmon (0.14.1). Differential expression analysis were performed using edgeR. Results: mRNA profiles of mouse kidney inner medullary collecting duct mIMCD3 cells treated with doxycycline or vehicle (DMSO) for 3 days and 6 days were generated using an optimized RNA-Seq workflow. Transcript level quantification using a pseudo-alignment quantification method (Salmon) was performed to calculate transcript abundance in each sample. Then differential expression analysis identified the differentially expressed genes at each time point comparison (DOX vs vehicle). Conclusions: This study revealed comprehensive transcriptomic changes of doxycycline-responsive gene expression in mouse kidney inner medullary collecting duct cells.
2021-11-17 | GSE171573 | GEO
Project description:Murine inner medullary collecting duct cells were treated for 1 hour with vehicle (control) or aldosterone. Total RNA was isolated and used as template to generate the eventual cRNA target. The experiment was repeated a total of three times. Six cRNA samples, three control and three treated, were generated and used in a total of six hybridizations. The mineralocorticoid aldosterone is a major regulator of Na+ and acid-base balance and control of blood pressure. Although the long-term effects of aldosterone have been extensively studied, the early aldosterone-responsive genes remain largely unknown. Using DNA array technology, we have characterized changes in gene expression after 1 h of exposure to aldosterone in a mouse inner medullary collecting duct cell line, mIMCD-3. Results from three independent microarray experiments revealed that the expression of many transcripts was affected by aldosterone treatment. Northern blot analysis confirmed the upregulation of four distinct transcripts identified by the microarray analysis, namely, the serum and glucose-regulated kinase sgk, connective tissue growth factor, period homolog, and preproendothelin. Immunoblot analysis for preproendothelin demonstrated increased protein expression. Following the levels of the four transcripts over time showed that each had a unique pattern of expression, suggesting that the cellular response to aldosterone is complex. The results presented here represent a novel list of early aldosterone-responsive transcripts and provide new avenues for elucidating the mechanism of acute aldosterone action in the kidney. Keywords: other
2003-05-22 | GSE434 | GEO
Project description:Renal branching morphogenesis is regulated by a number of intracellular signalling pathways. ILK has been previously shown to be an important regulator of RBM. Missense Variant, ILK-T173I, within the ankyrin-repeat domain is associated with congenital abnormalities of renal and urinary tract. We used microarray analysis to screen for differences in signalling pathway activity and gene target expression to identifity the underlying molecular mechanisms that contribute to renal and urinary tract malformations
2025-08-01 | GSE118045 | GEO
Project description:Regulation of renal water excretion is dependent on control of the molecular water channel aquaporin‐2 by the peptide hormone vasopressin in renal collecting duct cells. The control is in part due to the regulation of transcription of the Aqp2 gene and other genes by vasopressin. A systems biology‐based approach to understanding transcriptional control in renal collecting duct cells depends on knowledge of what transcription factors and other regulatory proteins are present in the cells' nucleus. The goal of this paper is to report comprehensive proteomic profiling of nuclear proteins in native inner medullary collecting duct (IMCD) cells of the rat. Multi‐dimensional separation procedures and state‐of‐the art protein mass spectrometry allowed the high stringency identification of a total of 5105 proteins in nuclear pellet (NP) and nuclear extract (NE) fractions of biochemically isolated rat IMCD cells (URL: https://helixweb.nih.gov/ESBL/Database/IMCD_Nucleus/)*. The analysis identified 369 transcription factor proteins out of the 1371 transcription factors coded by the rat genome. The analysis added 1898 proteins to the recognized proteome of rat IMCD cells, now amounting to 7003 unique proteins. Analysis of samples treated with the vasopressin analog dDAVP (1 nM for 30min) or its vehicle revealed 99 proteins in the NP fraction and 88 proteins in the NE fraction with significant changes in spectral counts (Fisher Exact Test, P<0.005). Among those altered by vasopressin were 7 distinct histone proteins all of which showed decreased abundance in the NP fraction, consistent with a possible effect of vasopressin to induce chromatin remodeling.
2018-10-24 | PXD002680 | Pride
Project description:Murine inner medullary collecting duct cells were treated for 1 hour with vehicle (control) or aldosterone. Total RNA was isolated and used as template to generate the eventual cRNA target. The experiment was repeated a total of three times. Six cRNA samples, three control and three treated, were generated and used in a total of six hybridizations. The mineralocorticoid aldosterone is a major regulator of Na+ and acid-base balance and control of blood pressure. Although the long-term effects of aldosterone have been extensively studied, the early aldosterone-responsive genes remain largely unknown. Using DNA array technology, we have characterized changes in gene expression after 1 h of exposure to aldosterone in a mouse inner medullary collecting duct cell line, mIMCD-3. Results from three independent microarray experiments revealed that the expression of many transcripts was affected by aldosterone treatment. Northern blot analysis confirmed the upregulation of four distinct transcripts identified by the microarray analysis, namely, the serum and glucose-regulated kinase sgk, connective tissue growth factor, period homolog, and preproendothelin. Immunoblot analysis for preproendothelin demonstrated increased protein expression. Following the levels of the four transcripts over time showed that each had a unique pattern of expression, suggesting that the cellular response to aldosterone is complex. The results presented here represent a novel list of early aldosterone-responsive transcripts and provide new avenues for elucidating the mechanism of acute aldosterone action in the kidney.
2007-11-06 | E-GEOD-434 | biostudies-arrayexpress
Project description:Transcriptional profile of inner medullary collecting duct cells in response to overnight NaCl hypertonic stress
2025-08-08 | GSE274371 | GEO
Project description:Epidermal growth factor (EGF) is a potent mitogenic agent promoting cell differentiation, proliferation, and growth. The kidney thick ascending limb of Henle’s loop and distal convoluted tubule were identified as major sites of EGF synthesis. As expected, EGF can modulate the functioning of kidney collecting duct including osmotic water permeability (Pf). Here, we found that EGF (0.1 uM) reduced the vasopressin-stimulated Pf by 26% in isolated perfused rat inner medullary collecting duct (IMCD). Immunoblotting using IMCD suspensions prepared in similar condition showed that EGF significantly reduced phosphorylation of AQP2 at Ser264 and Ser269 but had not affected on Ser256 or proline-directed Ser261 site. Quantitative phosphoproteomics was carried out to investigate other effects of EGF. Rat IMCD suspensions were treated with 1 M of EGF or vehicle for 30 min. Samples from three replicates of experiment were analyzed by TMT isobaric labeling quantitative protein mass spectrometry. We identified 23859 phosphopeptides with unique phosphorylation sites in EGF-treated rat IMCD samples, with 25 proteins increased and 100 proteins decreased in phosphorylation as determined by dual statistical analysis. EGF induced phosphorylation of multiple residues at the C-terminus of EGF receptor, EGFR or Erbb1, and mildly activated the classical MAPK pathway, RAF-MEK-ERK. EGF also affected phosphorylation of several proteins in PI3K/Akt pathway involved in cap-dependent translation initiation (Eif4ebp1, Gigyf2, Eif3b, Eif4g3, Pdcd4) and translation elongation (Eef2k, Eef2), predicted an overall translation repression. In comparison with a dDAVP-induced phosphoproteome, we found that the majority of proteins had phosphorylation change on specific site by either EGF or dDAVP but not both, suggesting a highly selectivity of phosphorylation modification induced by these two agents. Among the 25 peptides that had phosphorylation change on the same site by both EGF and dDAVP, AQP2 at Ser264/Ser269 was changed in opposite direction. We concluded that the short-term effect of EGF is insufficient to cause an effect on Ser261 phosphorylation of AQP2 in normal rat IMCD.
2025-06-26 | PXD017192 | Pride