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Links from GEO DataSets

Items: 20

1.

The transcriptional repressor Blimp1/Prdm1 regulates post-natal reprogramming of intestinal enterocytes

(Submitter supplied) Expression profiling of Prdm1 mutant E18.5 small intestine was performed using Illumina whole genome V2 arrays. The hypothesis tested in the present study was that Blimp1 regulates the transcription of key genes involved in enterocyte differentiation and survival. Results identify substantial and premature activation of key components of the adult enterocyte biochemical signature.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6887
21 Samples
Download data: TXT
Series
Accession:
GSE29658
ID:
200029658
2.

Analysis of Blimp-1 and Irf-1 genomic binding in wild type and Prdm1/Blimp-1 mutant embryonic gut

(Submitter supplied) The goal of this study was to profile Blimp1 binding in E18.5 small intestine using a Blimp-1-eGFP knock-in allele, and to compare Blimp-1-eGFP genomic binding with Irf-1 genomic binding in normal small intestine. Changes in Irf-1 binding between wild type and Prdm1/Blimp-1 mutant small intestine were also assessed.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
16 Samples
Download data: WIG
Series
Accession:
GSE66069
ID:
200066069
3.

VillinCre-Blimpflox mice postpartum day 7

(Submitter supplied) In many mammalian species, the intestinal epithelium is immature at birth. During the suckling to weaning transition, the intestine matures. This developmental transition is the result of a genetic program that is intrinsic to the gut and independent of luminal content, but its regulators have not been identified. We investigated the function of the transcriptional repressor Blimp-1 using mice with intestine-specific ablation of Blimp-1. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6885
16 Samples
Download data: TXT
Series
Accession:
GSE30556
ID:
200030556
4.

The transcriptional repressor Blimp-1/Prdm1 controls the maternal decidual response during pregnancy

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21103
27 Samples
Download data: BW
Series
Accession:
GSE141613
ID:
200141613
5.

The transcriptional repressor Blimp-1/Prdm1 controls the maternal decidual response during pregnancy [RNA-seq]

(Submitter supplied) Transcriptional profiling of E5.5 and E6.5 wild type and Blimp1 mutant decidua was performed using RNA-seq to identify maternal Blimp1 functions during pregnancy .
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
15 Samples
Download data: TXT
Series
Accession:
GSE141612
ID:
200141612
6.

The transcriptional repressor Blimp-1/Prdm1 controls the maternal decidual response during pregnancy [ChIP-seq]

(Submitter supplied) To identify candidate Blimp1 target genes in maternal decidua we performed GFP antibody ChIP-seq analysis of E6.5 decidua from homozygous female EGFP-BLIMP1 mice that express an endogenous N-terminal EGFP-tagged Blimp1 protein (Mitani et al., 2017).
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21103
12 Samples
Download data: BW
Series
Accession:
GSE141611
ID:
200141611
7.

Expression data from single cells from mouse primordial germ cell lineage (E6.25-E8.25, wild type and Blimp1KO)

(Submitter supplied) Specification of germ cell fate is fundamental in development. With a highly representative single-cell microarray and rigorous quantitative-PCR analysis, we defined the genome-wide transcription dynamics that create primordial germ cells (PGCs) from the epiblast, a process that exclusively segregates them from their somatic neighbors. We also analyzed the effect of the loss of Blimp1, a key transcriptional regulator, on these dynamics. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
106 Samples
Download data: CEL
Series
Accession:
GSE11128
ID:
200011128
8.

miRNA expression in Blimp-1-deficient dendritic cells

(Submitter supplied) Expression of Blimp-1 was specifically deleted in dendritic cells (DCs) by breeding Blimp-1 flox and CD11c-CRE mice. MiRNA expression was evaluated and compared from DCs, CD4+ T cells and total B cells from spleens of control and Blimp-1 KO mice.
Organism:
Homo sapiens; Mus musculus; Rattus norvegicus
Type:
Non-coding RNA profiling by array
Platform:
GPL15979
6 Samples
Download data: TXT
Series
Accession:
GSE40587
ID:
200040587
9.

Precocious expression of Blimp1 in the B cell lineage causes autoimmunity

(Submitter supplied) The transcription factor Blimp1 is not only an essential regulator of plasma cells, but also a risk factor for the development of autoimmune disease. Here, we demonstrate that the mouse Prdm1 (Blimp1) gene was partially activated at the chromatin and transcription level in early B cell development, although mature Prdm1 mRNA did not accumulate due to posttranscriptional regulation. By analyzing a mouse model that facilitated ectopic Blimp1 protein expression throughout B lymphopoiesis, we could demonstrate that Blimp1 impaired B cell development by interfering with the B cell gene expression program, while leading to an increased abundance of plasma cells by promoting premature plasmablast differentiation of immature and mature B cells. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other
Platforms:
GPL13112 GPL17021
17 Samples
Download data: BW, TXT
10.

Expression data from ESC and in vitro derived somatic cells and germ cells

(Submitter supplied) We performed gene expression profiling on in vitro derived PGCs, undifferentiated ESCs, and somatic cells from the EB to examine germ cell expression in ESC-derived cells
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
10 Samples
Download data: CEL, CHP
Series
Accession:
GSE33121
ID:
200033121
11.

Single-Cell RNA Sequencing Reveals Regional Reprogramming during Adaptation to Massive Small Bowel Resection in Mice

(Submitter supplied) Single-cell RNA sequencing reveals interactions between the retinoid metabolism pathway and molecular “proximalization”, or regional reprogramming, of distal small intestine epithelium following proximal small bowel resection. This provides novel insight into physiological adaptation to short gut syndrome.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
5 Samples
Download data: MTX, TSV
Series
Accession:
GSE130113
ID:
200130113
12.

Transcription Factors GATA4 and HNF4A Control Distinct Aspects of Intestinal Homeostasis in Conjunction With the Transcription Factor CDX2

(Submitter supplied) To determine whether the intestine-restricted transcription factor (TF) CDX2 functionally interacts with the endoderm-wide TF HNF4A, we crossed tissue-specific conditional Cdx2 and Hnf4a knockout mice to generate compound mutant mice. We used RNA-sequencing to profile gene expression changes in compound mutant mice compared to control mice. The compound mutant mice had a significantly worse phenotype than either single mutant, and gene expression was significantly perturbed in compound mutants compared to control mice.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19057
4 Samples
Download data: TXT
Series
Accession:
GSE62633
ID:
200062633
13.

The transcription factor CDX2 maintains active enhancer in intestinal villus cells in vivo

(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 array
Platforms:
GPL10773 GPL11002
23 Samples
Download data: BED, CEL, TXT
Series
Accession:
GSE34568
ID:
200034568
14.

The transcription factor CDX2 maintains active enhancer in intestinal villus cells in vivo (expression data)

(Submitter supplied) We established whether partner transcription factor binding, chromatin structure, or gene expression is compromised upon loss of partner factors cdx2 or hnf4a in mouse intestinal villi This metadata file describes the gene expression componant of that data
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL10773
12 Samples
Download data: CEL
Series
Accession:
GSE34567
ID:
200034567
15.

The transcription factor CDX2 maintains active enhancer in intestinal villus cells in vivo (ChIP-seq data)

(Submitter supplied) We established whether partner transcription factor binding, chromatin structure, or gene expression is compromised upon loss of partner factors cdx2 or hnf4a in mouse intestinal villi. This metadata file describes the ChIP-seq componant of that data
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11002
11 Samples
Download data: BED, TXT
Series
Accession:
GSE34566
ID:
200034566
16.

Expression data from mouse fetal and adult intestinal organoid cultures and intestinal tissues

(Submitter supplied) Here we profiled fetal intestinal epithlelium derived organoids at day 3 (group1) and 30 (group2) of culture, adult orgnanoids at day 3 (group3) and 30 (group4) of culture and whole intestinal tissues at P0(group5) and adult (group6).
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL20775
24 Samples
Download data: CEL, CHP
Series
Accession:
GSE118982
ID:
200118982
17.

Dynamic changes in chromatin states during specification and differentiation of adult intestinal stem cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platform:
GPL17021
74 Samples
Download data: TSV
Series
Accession:
GSE89684
ID:
200089684
18.

Dynamic changes in chromatin states during specification and differentiation of adult intestinal stem cells [rnaseq]

(Submitter supplied) To follow the changes in the transcriptional programs accompanying the specification, maintenance and differentiation of the adult ISCs we sequenced whole transcriptomes of embryonic intestinal epithelium progenitors (at E12.5 and E14.5), adult ISCs and their differentiated progenies, the majority of which are absorptive enterocytes. EpCAM positive embryonic gut epithelium was isolated from dissected small intestines using fluorescence activated cell sorting (FACS). more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
12 Samples
Download data: TSV
Series
Accession:
GSE89683
ID:
200089683
19.

Dynamic changes in chromatin states during specification and differentiation of adult intestinal stem cells [mbd]

(Submitter supplied) We assessed whether changes in DNA methylation were associated with the regulation of ISC signature genes. Methylated regions of DNA from whole genome were isolated using Methyl Binding Domain pull-down followed by sequencing (MBD-seq). The size of DNA fragments was between 120 to 170 bp, which provides a resolution at nucleosome level.
Organism:
Mus musculus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL17021
8 Samples
Download data: TSV
Series
Accession:
GSE89682
ID:
200089682
20.

Dynamic changes in chromatin states during specification and differentiation of adult intestinal stem cells [k27m3]

(Submitter supplied) To determine chromatin changes associated with ISCs specification we performed chromatin immunoprecipitation followed by sequencing (ChIP-seq) using 2x105 FACS purified E12.5 or E14.5 embryonic intestinal epithelial cells, Lgr5+ adult ISCs and enterocytes.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17021
12 Samples
Download data: TSV
Series
Accession:
GSE89681
ID:
200089681
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