Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression data for kidney progenitor tissue from rat embryo at E13

ABSTRACT: In this study we compared genes expressed in the unbudded portion of the Wolffian duct with the isolated ureteric bud to find genes novel to early kidney development. We used the Affymetrix Rat Genome 230 2.0 Array to compare the unbudded tissues with the budded samples. We used microarrays to find novel genes regulating early kidney formation.

ORGANISM(S): Rattus norvegicus

PROVIDER: GSE18260 | GEO | 2009/12/10

SECONDARY ACCESSION(S): PRJNA117931

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcription profiling of rat kidney progenitor tissue from embryo at E13

Project description:In this study we compared genes expressed in the unbudded portion of the Wolffian duct with the isolated ureteric bud to find genes novel to early kidney development. We used the Affymetrix Rat Genome 230 2.0 Array to compare the unbudded tissues with the budded samples. We used microarrays to find novel genes regulating early kidney formation. Experiment Overall Design: Isolated ureteric buds (UB) were separated from the embryonic kidney after a light trypsinization step. Approximately 100 UBs were pooled together into each replicate. Approximately 100 isolated Wolffian ducts were dissected from E13 rat embryoes and pooled into each sample. Approximately 50 Wolffian ducts with attached mesodermal cells were pooled into each replicate.

2009-12-19 | E-GEOD-18260 | biostudies-arrayexpress

Expression data from E12.5 embryonic kidneys isolated from wild-type and Ret-deficient mice

2012-04-01 | GSE32093 | GEO

Expression data from embryonic rat kidney timepoints and a budded WD-MM recombination tissue

2007-11-30 | GSE9570 | GEO

Expression data from E12.5 embryonic kidneys isolated from wild-type and Ret-deficient mice

Project description:To better understand the signaling and transcriptional events involved in the GDNF-independent emergence of the ureteric bud from the Wolffian duct, microarray expression analysis was performed on embryonic kidneys from wild-type and Ret-deficient mice. Microarray data was used to identify genes and gene networks involved in the GDNF-independent outgrowth of the ureteric bud. Whole embryonic kidneys from E12.5 Ret mutant and wild-type mice were isolated. Isolated kidneys were lysed and RNA was extracted with the Qiagen RNEasy Micro kit. The RNA was amplified using the NuGEn Ovation kit and hybridized to the Affymetrix GeneChip Mouse Whole Genome 430 2.0 microarray. Three biological replicates for Ret-knockout and wild-type kidneys were performed.

2012-03-31 | E-GEOD-32093 | biostudies-arrayexpress

HNF1B controls epithelial organization and cell polarity during ureteric bud branching and collecting duct morphogenesis

Project description:Kidney development depends critically on proper ureteric bud branching giving rise to the entire collecting duct system. The transcription factor HNF1B is required for the early steps of ureteric bud branching. Yet, the molecular and cellular events regulated by HNF1B are poorly understood. We report that specific removal of Hnf1b from the ureteric bud leads to defective cell-cell contacts and apico-basal polarity during the early branching events. High resolution ex vivo imaging combined with a membranous fluorescent reporter strategy show decreased mutant cell-rearrangements during mitosis-associated cell dispersal and severe epithelial disorganisation. Molecular analysis reveals downregulation of Gdnf-Ret pathway components and suggests that HNF1B acts both upstream and downstream of Ret-signaling by directly regulating Gfrα1 and Etv5. Subsequently, Hnf1b-deletion leads to massively mispatterned ureteric tree network, defective collecting duct differentiation and disrupted tissue architecture leading to cystogenesis. Consistently, mRNA-seq analysis performed from E15.5 control and mutant kidneys shows that the most impacted genes encode intrinsic cell-membrane components with transporter activity. Our study uncovers a fundamental and recurrring role of HNF1B in epithelial organization during early ureteric bud branching and further patterning and differentiation of the collecting duct system. Article submitted to Development. Authors: Audrey Desgrange, Claire Heliot,Ilya Skovorodkin, Saad U. Akram, Janne Heikkilä, Veli-Pekka Ronkainen, Ilkka Miinalainen I., Seppo J. Vainio and Silvia Cereghini

2017-12-15 | GSE106085 | GEO

The developmental programme for genesis of the entire kidney is recapitulated in Wilms tumour

Project description:Expression profiling of Wilms tumour samples, which identified molecular signatures of the ureteric bud and collecting duct as well as those of the proximal and distal tubules in triphasic histology tumours. These observations indicate Wilms tumours can arise from a precursor cell capable of generating the entire kidney, such as the cells of the intermediate mesoderm from which both the metanephric mesenchym and ureteric bud are derived.

2017-12-31 | E-MTAB-3516 | biostudies-arrayexpress

PRRUB FACS cells microarray

Project description:This experiment aimed to uncover the genome-wide alternation in gene expression resulting from the removal of PRR from the population ureteric bud and collecting duct and successive changes to the series of events in kidney development.

2016-10-15 | GSE88787 | GEO

Transcription profiling of rat embryonic kidney timepoints and a budded WD-MM recombination tissue

Project description:Here we compared the expression of an engineered kidney tissue, created by recombining an in vitro budded Wolffian duct with fresh E13 metanephric mesenchyme, with that of three in vivo rat embryonic kidney timepoints (E13, E18, and week 4) Experiment Overall Design: The global gene expression of recombined tissue (non-branched in vitro-formed UBs and MM) was analyzed and compared to the gene expression of early, late, and post developmental kidneys in order to determine whether normal developmental pathways were being followed. Genes with at least a 3-fold difference in expression between any of the 4 conditions (E13, E18, Wk4, recombined tissue) were analyzed and grouped into one of ten expression patterns. The expression of each group of genes was analyzed in the recombined tissue to compare the recombined tissue gene expression levels to the three in vivo time points.

2008-06-16 | E-GEOD-9570 | biostudies-arrayexpress

Generation of kidney ureteric bud and collecting duct organoid

Project description:A platform for generating expandable, branching and gene-editable ureteric bud organoid from primary mouse and human ureteric bud progenitor cells and human pluripotent stem cells, and its maturation into collecting duct organoid.

2021-05-11 | GSE149109 | GEO

Gene expression in epithelial and non-epithelial cells of renal origin

Project description:We aimed to define epithelial-specific genes in the kidney. In the developing mouse kidney at E12.5 epithelial cells are restricted to the ureteric bud, while mesenchymal cells surrounding the ureteric bud are non-epithelial. The mouse renal epithelial cell line mIMCD-3 was used to represent kidney epithelia in vitro. Gene expression was analyzed using Affymetrix microarrays in ureteric bud stalks, ureteric bud tips, and mIMCD-3 cells and compared to metanephric mesenchyme.

2010-09-23 | GSE24295 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data