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Normal colon top vs colon crypts

ABSTRACT: The study is to define the genetic programs of human colonic cell differentiation, and to identify candidate markers for colonic stem cells and stem cell niche The study assayed the expression of 9 paired normal colon top versus crypts. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

ORGANISM(S): Homo sapiens

PROVIDER: GSE6894 | GEO | 2007/08/28

SECONDARY ACCESSION(S): PRJNA98539

REPOSITORIES: GEO

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Normal colon top vs colon crypts

Project description:The study is to define the genetic programs of human colonic cell differentiation, and to identify candidate markers for colonic stem cells and stem cell niche The study assayed the expression of 9 paired normal colon top versus crypts. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Using regression correlation

2007-08-28 | E-GEOD-6894 | biostudies-arrayexpress

Gene expression data from DSS-treated crypts, normal colon crypts and tumor crypts

Project description:Comparative gene expression profiling between DSS-treated crypts and normal colon crypts Comparative gene expression profiling between normal colon crypts and tumor crypts

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Analysis by RNA-seq of the transcriptional profile of three sub-populations of mouse colon epithelial cells (Lgr5+ columnar basal cells, goblet cells, enterocytes).

Project description:In this dataset, we report the analysis by RNA-sequencing (RNA-seq) of the transcriptional profile of three sub-populations of epithelial cells contained in the mouse colonic epithelium: 1) Epcam+/Cd44+/Kit-neg cells, which correspond to a population of epithelial cells located at the bottom of colonic crypts and enriched in Lgr5+ columnar basal cells (CBCs); 2) Epcam+/Cd44+/Kit+ cells, which correspond to a population of epithelial cells located at the bottom of colonic crypts and enriched in goblet cells; 3) Epcam+/Cd44-neg/Cd66-high cells, which correspond to a population of epithelial cells located at the top of colonic crypts and enriched in mature enterocytes (Rothenberg et al., Gastroenterology, 142:1195-1205, 2012).

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SW13_BRG1_3arrays

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2005-07-21 | GSE2966 | GEO

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Project description:Comparison between perR and wild type Bacillus Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

2005-08-16 | GSE3139 | GEO

Genome-Wide Gene Dosage Representation in Phi29-Amplified DNA

Project description:Corresponds to Bredel et al 2005 Figure 2 Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

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Phi29-based amplification of fresh-frozen and FFPE tumor DNA

Project description:Corresponds to Bredel et al 2005 Figure 1 Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

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Methylation clocks - individual colon, small intestine and endometrial crypts

Project description:We developed DNA methylation clocks where ongoing (de)methylation causes the clock to Ã¢Â€Â˜tick-tockÃ¢Â€Â™ back-and-forth between methylated and unmethylated states. We identified tick-tock CpG sites using standard methylation arrays and developed a mathematical modelling framework to quantitatively measure human adult stem cell dynamics from these data. Small intestinal crypts were inferred to contain slightly more stem cells than colon (6.5 Ã‚Â± 1.0 vs 5.8 Ã‚Â± 1.7 stem cells/crypt) with slower stem cell replacement in small intestine (0.79 Ã‚Â± 0.5 vs 1.1 Ã‚Â± 0.8 replacements/stem cell/year). Germline APC mutation increased the number of replacements per crypt (13.0 Ã‚Â± 2.4 replacements/crypt/year vs 6.9 Ã‚Â± 4.6 for healthy colon).

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Gene expression data from crypts isolated from WT and Lpcat3 Villin-CreERT2 mice

Project description:We used microarray to analyze the global gene expression in crypts isolated from wild-type (Lpcat3F/F) and Lpcat3 tamoxifen inducible intestine-specific knockout (Lpcat3F/F, Villin-CreERT2) crypts. Phospholipid remodeling is a critical determinant of membrane composition and function. How membrane phospholipid composition affects tissue stem cell function and tumorigenesis is unknown. Here we demonstrate that Lpcat3-dependent phospholipid remodeling regulates intestinal stem cell (ISC) proliferation and promotes tumorigenesis in intestine. The objective of generating this dataset was to analyze the effects of Lpcat3 loss of function on gene expression in mouse intestine crypts.

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HSF1 Mouse Fibroblast Heat Shock - Scanner7

Project description:Mouse HSF1+/+ and HSF1-/- Fibroblasts Heat Shock Time Courses Scanned on Scanner 7 (Axon 4000B) Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

2005-08-05 | GSE3074 | GEO

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