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Links from GEO DataSets

Items: 19

1.

Transcriptome analysis of Brg1 deficient small intestinal epithelium in the context of normal and aberrant Wnt signalling

(Submitter supplied) Brg1 has been reported to act as a trans-activator for the Wnt pathway by interacting with beta-catenin. Given this interaction and the crucial role Wnt signalling plays in the intestinal homeostasis, we aimed to investigate the effect of Brg1 loss on gene expression in normal and Wnt activated small intestinal epithelium.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6885
15 Samples
Download data
Series
Accession:
GSE46129
ID:
200046129
2.

Expression changes in intestinal crypts upon deletion of beta-catenin

(Submitter supplied) The Wnt signaling pathway is deregulated in over 90% of human colorectal cancers. β Catenin, the central signal transducer of the Wnt pathway, can directly modulate gene expression by interacting with transcription factors of the TCF/LEF-family. In the present study we investigate the role of Wnt signaling in the homeostasis of intestinal epithelium using tissue-specific, inducible beta-catenin gene ablation in adult mice. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS2984
Platform:
GPL1261
4 Samples
Download data: CEL, CHP
Series
Accession:
GSE8818
ID:
200008818
3.
Full record GDS2984

Beta-catenin inactivation effect on intestinal crypts

Analysis of intestinal crypts following inactivation of beta catenin. The mucosa of the intestine is composed of submucosal invaginations called intestinal crypts. Results provide insight into the molecular mechanisms underlying crypt loss as a result of beta-catenin inactivation.
Organism:
Mus musculus
Type:
Expression profiling by array, count, 2 protocol sets
Platform:
GPL1261
Series:
GSE8818
4 Samples
Download data: CEL, CHP
4.

Transcriptional profiling of Lung H1299-BRG1 inducible cells

(Submitter supplied) Global Transcriptional analysis of BRG1 in lung cancer cells
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL4133
12 Samples
Download data: TXT
Series
Accession:
GSE35168
ID:
200035168
5.

Global gene expression analysis of Dot1l-deficient and control intestinal villus cells in mouse

(Submitter supplied) Methylation of H3K79 is associated with chromatin at expressed genes, though it is unclear if this histone modification is required for transcription of all genes. Recent studies suggest that Wnt-responsive genes depend particularly on H3K79 methylation, which is catalyzed by the methyltransferase DOT1L. Human leukemias carrying MLL gene rearrangements show DOT1L-mediated H3K79 methylation and aberrant expression of leukemogenic genes. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
2 Samples
Download data: TXT
Series
Accession:
GSE41710
ID:
200041710
6.

DOT1L-mediated H3K79 methylation in chromatin is dispensable for Wnt pathway-specific and other intestinal epithelial functions

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platforms:
GPL13112 GPL9185 GPL8321
10 Samples
Download data: CEL, TXT, WIG
Series
Accession:
GSE41543
ID:
200041543
7.

H3K79me2 ChIP-seq in mouse proximal intestinal Lgr5(hi) stem cells and villus cells

(Submitter supplied) H3K79me2 ChIP-seq in mouse proximal intestinal Lgr5(hi) stem cells and villus cells
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9185
4 Samples
Download data: WIG
Series
Accession:
GSE41542
ID:
200041542
8.

Expression data from mouse proximal intestinal epithelial Lgr5(hi) stem cells and differentiated villus cells (enterocytes from Atoh1 conditional knockout)

(Submitter supplied) We used microarrays to detail the differentail gene expression between intestinal Lgr5(hi) stem cells and differentiated cells
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL8321
4 Samples
Download data: CEL
Series
Accession:
GSE41541
ID:
200041541
9.

Ascl2 acts as an R-spondin/Wnt responsive switch to control stemness in intestinal crypts

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus; Homo sapiens
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL9318 GPL4134 GPL9442
14 Samples
Download data: TXT, WIG
Series
Accession:
GSE84457
ID:
200084457
10.

Ascl2 acts as an R-spondin/Wnt responsive switch to control stemness in intestinal crypts [ChIP-seq]

(Submitter supplied) Wnt signals control three functions of intestinal crypts: maintenance of Lgr5 stem cells, proliferation of transit-amplifying daughters and formation of Paneth cells. Here, we study how the Wnt effector β-catenin/Tcf4 cooperates with the Wnt-activated transcription factor Ascl2 to control a stem cell transcription program. DNA elements that are co-occupied and synergistically regulated by Ascl2 and Tcf4 specifically map to stem cell genes. more...
Organism:
Mus musculus; Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL9318 GPL9442
6 Samples
Download data: WIG
Series
Accession:
GSE84456
ID:
200084456
11.

Ascl2 acts as an R-spondin/Wnt responsive switch to control stemness in intestinal crypts [array]

(Submitter supplied) Wnt signals control three functions of intestinal crypts: maintenance of Lgr5 stem cells, proliferation of transit-amplifying daughters and formation of Paneth cells. Here, we study how the Wnt effector β-catenin/Tcf4 cooperates with the Wnt-activated transcription factor Ascl2 to control a stem cell transcription program. DNA elements that are co-occupied and synergistically regulated by Ascl2 and Tcf4 specifically map to stem cell genes. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL4134
8 Samples
Download data: TXT
Series
Accession:
GSE57053
ID:
200057053
12.

Essential role of Arid1a in intestinal stem cell maintenance and homeostasis through Sox9 regulation (ChIP-Seq)

(Submitter supplied) Arid1a, a subunit of the SWI/SNF chromatin remodeling complex, have been reported in multiple human cancers, however, its functional role in intestinal homeostasis remains unclear. To investigate the role of Arid1a in murine intestine, we have employed ChIP experiments in intestinal spheroid cells generated from crypt cells of wild type mice. ChIP assay revealed that Arid1a binds directly to the Sox9 promoter to support its expression.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17021
1 Sample
Download data: BED, TXT
Series
Accession:
GSE121658
ID:
200121658
13.

Sox9 transcriptionally regulates Wnt signaling in intestinal epithelium stem cells under hypomethylated crypts in diabetic state

(Submitter supplied) Mammalian intestinal epithelium stem cells (IESCs) and their daughter cells require the participation of DNA methylation and the transcription factor Sox9 for proliferation and differentiation. Combining methylated DNA immunoprecipitation with microarray hybridization, we demonstrate that hypomethylation in promoter participates in the aberrant formation of crypts in diabetic db/db mice through ectopic Wnt signaling. more...
Organism:
Mus musculus
Type:
Methylation profiling by array
Platform:
GPL21852
6 Samples
Download data: GFF, TXT, XLSX
Series
Accession:
GSE87044
ID:
200087044
14.

RNA-seq in Prdm16 KO doudenal and villi

(Submitter supplied) RNA was extracted from duodenal villi from crontrol and Prdm16 KO mice 3 days after deletion
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
6 Samples
Download data: XLS
Series
Accession:
GSE137888
ID:
200137888
15.

PRDM16 ChIP-Seq in Prdm16 WT and KO duodenal crypts

(Submitter supplied) PRDM16 ChIP was perfomed in control and Prdm16 KO crypts isolated from the duodenum of 6 week old mice 3 days after inducible gene deletion
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21103
6 Samples
Download data: BED, BW
Series
Accession:
GSE131487
ID:
200131487
16.

RNA Seq In Isolated Crypts from Duodenum, Jejunum, and Ileum

(Submitter supplied) RNA was extracted from crypts from the three portions of the small intestine
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21273
9 Samples
Download data: XLSX
Series
Accession:
GSE131438
ID:
200131438
17.

Control of region-specific intestinal metabolism and maintenance by PRDM16

(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
Platforms:
GPL21273 GPL13112 GPL21103
31 Samples
Download data: BW
Series
Accession:
GSE121014
ID:
200121014
18.

RNA-seq in Prdm16 KO duodenal crypts

(Submitter supplied) The adult intestinal epithelium is maintained by a continuous replacement of differentiated cells from stem cells. Previous studies suggest that cellular metabolic pathways regulate intestinal stem cell activity and differentiation. However, little is known about the cell-intrinsic factors that control these metabolic programs. Here, we identify the transcription factor PRDM16 as a critical regulator of intestinal metabolic programing and stem cell differentiation. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
6 Samples
Download data: TXT
Series
Accession:
GSE121009
ID:
200121009
19.

H3K27Ac ChIP-Seq in Prdm16 KO duodenal crypts

(Submitter supplied) The adult intestinal epithelium is maintained by a continuous replacement of differentiated cells from stem cells. Previous studies suggest that cellular metabolic pathways regulate intestinal stem cell activity and differentiation. However, little is known about the cell-intrinsic factors that control these metabolic programs. Here, we identify the transcription factor PRDM16 as a critical regulator of intestinal metabolic programing and stem cell differentiation. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
4 Samples
Download data: BED, BW
Series
Accession:
GSE120897
ID:
200120897
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