GEO DataSets

(Submitter supplied) Both p53 and the Wnt signaling pathways play important roles in tumorigenesis and development. However, few studies, particularly on a genome-wide scale, have linked these two pathways. Here we show that p53 directly regulates the Wnt signaling pathway in murine embryonic stem cells (mESCs) using an integrated genome-wide approach. A chromatin-immunoprecipitation-based microarray assay (ChIP-chip) reveals that the Wnt signaling pathway is significantly over-represented in p53 bound genes. more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by array

Platforms:

GPL4128 GPL4129

4 Samples

Download data: TXT

(Submitter supplied) Genome-wide analysis of gene expression changes in murine embryonic stem cells (R1E cells) treated with Ultraviolet and adriamycin Both p53 and the Wnt signaling pathways play important roles in tumorigenesis and development. However, few studies, particularly on a genome-wide scale, have linked these two pathways. Here we show that p53 directly regulates the Wnt signaling pathway in murine embryonic stem cells (mESCs) using an integrated genome-wide approach. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6246

12 Samples

Download data: CEL

(Submitter supplied) Expression profile of miRNAs during retinoic acid (RA) induced differentiation of mose embryonic stem cells Expression profile of mRNAs during retinoic acid (RA) amd miR-134 induced differentiation of mouse embryonic stem cells. Keywords: affymetrix custom array and illumina MouseRef-8

Organism:

Mus musculus

Type:

Expression profiling by array; Non-coding RNA profiling by array

Platforms:

GPL3576 GPL4865

30 Samples

Download data

(Submitter supplied) The transcriptional profiles of cardiac cells derived from murine embryos and from mouse embryonic stem cells (mESCs) have primarily been studied within a cell population. However, the characterization of gene expression in these cells at a single cell level may demonstrate unique variations that are not able to be appreciated as a pool. In this study, we aimed to establish a single cell quantitative PCR platform and perform side-by-side comparison between cardiac progenitors cells (CPCs) and cardiomyocytes (CMs) derived from mESC and mouse embryos. more...

Organism:

Mus musculus

Type:

Expression profiling by RT-PCR

Platform:

GPL19645

212 Samples

Download data: CSV

(Submitter supplied) Transcriptional profiling of mouse embryonic kidneys (E13.5) comparing UB HDAC1,2-/- kidneys with wild type kidneys. Studies in our lab showed that histone deacetylase 1 (HDAC1) and 2 (HDAC2) perform redundant, yet essential functions in the developing mouse ureteric bud (UB) tissue. Double deletion of HDAC1 and HDAC2 in the UB results in impaired UB branching morphogenesis, followed by severe kidney dysgenesis. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL4134

8 Samples

Download data: TXT

(Submitter supplied) Embryonic stem (ES) cells have the potential to generate a variety of cell lineages including endothelial cells, blood cells and smooth muscle cells. flk1-expressing cells derived from ES cells serve as vascular progenitors. We have used global gene expression analysis in order to establish a comprehensive list of candidate genes in the developing vasculature during ES cell differentiation in vitro. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2322

Platform:

GPL922

24 Samples

Download data

Analysis of VEGF receptor Flk1-expressing cells isolated from embryoid bodies up to 8 days post-differentiation. Flk1-expressing cells have developmental potential uniquely restricted to hematopoietic and endothelial lineages. Results provide insight into early vascular development.

Organism:

Mus musculus

Type:

Expression profiling by array, log2 ratio, 2 genotype/variation, 3 time sets

Platform:

GPL922

Series:

GSE3757

24 Samples

Download data

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:

GPL24247

43 Samples

Download data: BED, BIGWIG, BW, GTF, NARROWPEAK

(Submitter supplied) This study describes the transcriptome profiling of day 6 SFEBq embryonic bodies (EBs): 1) WT; 2) Wdr5 KO ; 3) Wdr5 KO with T12h hWDR5 rescue; 4) Wdr5 KO with T48h hWDR5 rescue

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

18 Samples

Download data: GTF

(Submitter supplied) This study describes the binding profile of MAX in mouse embryonic bodies at day 2 (WT, Wdr5 KO, Wdr5 and p53 double knockout)

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

3 Samples

Download data: NARROWPEAK

(Submitter supplied) This study describes the binding profile of WDR5 and H3K4me3 in Wdr5 and p53 double knockout ESC rescued with WDR5WT or WDR5S91KY191F

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

6 Samples

Download data: BIGWIG, NARROWPEAK

(Submitter supplied) This study describes time-course chromatin accessibility profiling of mouse ESC and embryonic bodies n Wdr5 and p53 knockout (with or without WT or mutant hWDR5 rescue)

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

16 Samples

Download data: BED, BW, NARROWPEAK

(Submitter supplied) MicroRNAs (miRNAs) post-transcriptionally regulate the expression of thousands of distinct mRNAs. While some regulatory interactions help to maintain basal cellular functions, others are likely relevant in more specific settings, such as response to stress. Here we describe such a role for the mir-290-295 cluster, the dominant miRNA cluster in mouse embryonic stem cells (mESCs). Examination of a target list generated from bioinformatic prediction, as well as expression data following miRNA loss, revealed strong enrichment for apoptotic regulators, two of which we validated directly: Caspase 2, the most highly conserved mammalian caspase, and Ei24, a p53 transcriptional target. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

6 Samples

Download data: CEL

(Submitter supplied) The Wnt/β-catenin signalling pathway is a key regulator of embryonic stem cell self-renewal and differentiation. Constitutive activation of this pathway has been shown to significantly increase mouse embryonic stem cell (mESC) self-renewal and pluripotency marker expression. In this study, we generated a novel β-catenin knock-out model in mESCs by using CRISPR/Cas9 technology to delete putatively functional N-terminally truncated isoforms observed in previous knock-out models. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

8 Samples

Download data: CSV

(Submitter supplied) Tumor suppressor p53 promotes differentiation of human embryonic stem cells (hESCs), but an in-depth understanding of mechanism is lacking. Here, we define p53 functions in hESCs by genome wide profiling of p53 chromatin interactions and intersection with gene expression during early differentiation and in response to DNA damage. During differentiation, p53 targets and regulates a unique collection of genes, many of which encode transcription factors and developmental regulators with chromatin structure poised by OCT4 and NANOG and marked by repressive H3K27me3 in pluripotent hESCs. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL10999 GPL11154

8 Samples

Download data: BED

(Submitter supplied) Tumor suppressor p53 promotes differentiation of human embryonic stem cells (hESCs), but an in-depth understanding of mechanism is lacking. Here, we define p53 functions in hESCs by genome wide profiling of p53 chromatin interactions and intersection with gene expression during early differentiation and in response to DNA damage. During differentiation, p53 targets and regulates a unique collection of genes, many of which encode transcription factors and developmental regulators with chromatin structure poised by OCT4 and NANOG and marked by repressive H3K27me3 in pluripotent hESCs. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

9 Samples

Download data: CEL

(Submitter supplied) Embryonic stem (ES) cells continuously decide whether to maintain pluripotency or differentiate. While exogenous LIF and BMP4 perpetuate a pluripotent state, less is known about factors initiating differentiation. We show that heparan sulfate (HS) proteoglycans are critical co-receptors for signals inducing ES cell differentiation. Genetic targeting of NDST1 and 2, two enzymes required for N-sulfation of proteoglycans, blocked differentiation. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6885

16 Samples

Download data: TXT

(Submitter supplied) We used ChIP-seq to identify the genomic locations bound by p53 in mouse kidney

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL9250

2 Samples

Download data: BED

(Submitter supplied) Gene expression microarray analysis was performed on E15.5 p53+/+ and p53-/- litter-matched kidneys. We have previously shown that p53 is expressed in both UB and MM lineages in the kidney, and that p53-null embryos on C57B6L background exhibit a range of congenital abnormalities of the kidney and urinary tract such as duplicated ureters, reduced nephron numbers, and compromised nephron progenitor renewal and differentiation. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL4134

8 Samples

Download data: TXT

(Submitter supplied) Treatment with PARP inhibitor (PJ34) suppressed the formation of neurospheres by NSPCs of wild-type or Trp53-/- through the suppression of cell cycle progression and the induction of apoptosis. In order to identify the genes responsible for these effects.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL13912

4 Samples

Download data: TXT