Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

39 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Role of polycomb repressive complex 1 in the intestinal homeostasis

ABSTRACT: This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

ORGANISM(S): Mus musculus

SUBMITTER: Sri Ganesh Jammula

PROVIDER: E-GEOD-65322 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Role of polycomb repressive complex 1 in the intestinal homeostasis [RNA-Seq]

Project description:These data include RNA Seq data generated from wild type and Ring1a Ring1b dKO ISCs from Lgr5Gfp-CreERT2, Lgr5Gfp-CreERT2 Ring1a-/- Ring1bf/f, Lgr5Gfp-CreERT2-Ctnnb1-ex3 and Lgr5Gfp-CreERT2 Ring1a-/- Ring1bf/f-Ctnnb1-ex3 mice. Total RNA extracted from sorted wild type and Ring1a Ring1b dKO ISCs.

2015-10-29 | E-GEOD-65321 | biostudies-arrayexpress

Role of polycomb repressive complex 1 in the intestinal homeostasis [ChIP-Seq]

Project description:These data include the genome wide occupancy of histone modifications and transcription factors by ChIP sequencing in mouse crypt cells and in mouse ISCs. Immuno-precipitation of formaldehyde cross-linked chromatin prepared from wild type and Ring1a Ring1b dKO crypt cells and from WT ISCs using specific antibody against different target protein/modification.

2015-10-29 | E-GEOD-65318 | biostudies-arrayexpress

Role of polycomb repressive complex 1 in the intestinal homeostasis [ChIP-seq 2]

Project description:These data include the genome wide occupancy of histone modifications and transcription factors by ChIP sequencing in mouse villi cells and in mouse ISCs. Immuno-precipitation of formaldehyde cross-linked chromatin prepared from wild type Villi cells and wild type and Ring1a Ring1b dKO ISCs using specific antibody against different target protein/modification.

2015-10-29 | E-GEOD-71946 | biostudies-arrayexpress

Role of polycomb repressive complex 1 in the intestinal homeostasis [RNA-seq 2]

Project description:These data include RNA Seq data generated from wild type and Ring1a Ring1b dKO Villi from Rosa26-CreERT2 Cdkn2a-/- and Rosa26-CreERT2 Cdkn2a-/- Ring1a-/- Ring1bf/f mice. Total RNA extracted from wild type and Ring1a Ring1b dKO Villi.

2015-10-29 | E-GEOD-71948 | biostudies-arrayexpress

Group 3 innate lymphoid cells amplify YAP1-driven small intestinal repair

Project description:Ror gamma t-deficient mice lack group 3 Innate Lymphoid Cells (ILC3s) and as a result have increased tissue damage and diminished tissue repair in response to insult. To identify repair programs associated with ILC3 presence the transcriptomes of small intestinal stem cells exposed to damage in the presence or absence of ILC3 were compared. Small intestinal damage was induced in Ror gamma t-deficient Lgr5 reporter mice and littermate controls. Small intestinal epithelial stem cells were purified at days 1 and 4 after damage and subjected to RNA sequencing.

2018-06-29 | E-MTAB-6639 | biostudies-arrayexpress

An epigenetic basis for lateral inhibition and lineage plasticity in intestinal differentiation

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-01-06 | E-GEOD-51464 | biostudies-arrayexpress

Gene expression in intestinal epithelial crypt and villus cell populations

Project description:We analyzed gene expression profiles in isolated mouse LGR5+ intestinal stem cells, lineage-specific enterocyte and secretory progenitors, and terminally differentiated villus enterocytes. Gene Ontology analyses of cell type-specific transcripts indicated their expected biological functions. We hybridized Affmetrix 430A 2.0 mouse microarrays with processed RNA isolated from purified Lgr5+ intestinal stem cells, secretory (Sec-Pro) and enterocyte (Ent-Pro) crypt progenitors, and mature villus enterocytes (ENT).

2014-01-06 | E-GEOD-51398 | biostudies-arrayexpress

RNA-seq of mouse Lgr5+ intestinal stem cells and progenitors following Lkb1 deletion against controls

Project description:Perturbed intestinal epithelial homeostasis demonstrated as decreased Lgr5+ intestinal stem cells (Lgr5 ISCs) and increased secretory lineages were observed in our study where Lkb1 was specfically deleted in Lgr5 ISCs using Lgr5-EGFP-creERT2 (Tamoxifen) deletor. To gain mechanistic insight how Lkb1 maintains intestinal epithelial stem cell homeostasis, Lkb1 deficient ISCs (Lgr5-high cells) and progenitors (Lgr5-low cells) are isolated by flow cytometry and profiled by RNA sequencing to compare with controls (Lkb1 wild type ISCs and progenitors).

2020-02-29 | E-MTAB-6501 | biostudies-arrayexpress

Analyses of the chromatin and transcriptional basis for lateral inhibition in isolated intestinal epithelial cells.

Project description:We analyzed chromatin modifications, DNaseI-hypersensitive sites, and occupancy of a key secretory-lineage transcription factor, ATOH1. We found that lateral inhibition in the intestine occurs through ATOH1 exerting direct control within a broadly permissive chromatin state that is established in stem cells and is highly similar in specified progenitors of divergent potential. Mapping chromatin modifications (H3K4me2 and H3K27ac), DNaseI hypersensitivity (DHS), and ATOH1 binding sites in isolated intestinal crypt progenitors and mature intestinal villus cells.

2014-01-06 | E-GEOD-51458 | biostudies-arrayexpress

Distinct processes and transcriptional targets underlie CDX2 requirements in intestinal stem cells and differentiated villus cells

Project description:To define target genes of the intestine-restricted transcription factor (TF) CDX2 in intestinal stem cells, we performed chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq). We used RNA-sequencing to profile gene expression changes during cell differentiation from mouse intestinal stem cells to mature villus cells, as well as genes perturbed in intestinal stem cells upon loss of Cdx2. We find thousands of genes that change in expression during cell differentiation, including known stem cell and mature markers. Upon loss of Cdx2, hundreds of genes are up and down-regulated in intestinal stem cells, some of which are also bound by CDX2 nearby and constitute candidate direct target genes. CDX2 ChIP-Seq analysis of isolated mouse intestinal stem cells. RNA seq analysis of control mouse villus cells, control intestinal stem cells and Cdx2-deleted intestinal stem cells.

2015-09-15 | E-GEOD-70766 | biostudies-arrayexpress

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