Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Arrays of time course experiment (2-28 d) laser microdissected samples of H. pylori -infected mice

ABSTRACT: Mice were infected with Helicobacter pylori strain SS1 for 2, 7, 14 or 28 days or left uninfected. They were sacrificed at the appropriate times, the stomachs were removed and one half was plated for colony counts. The other half was embedded in OCT and cryosections were produced for 6-7 animals per timepoint. The sections were stained using the Histogene dye and roughly 500-1000 cells per gastric epithelial cell type were harvested by laser microdissection. RNA was prepared from these samples, subjected to two rounds of amplification, labelled and hybridized to 40.000 element murine cDNA arrays. The array names are composed as follows: "LCM" stands for laser capture microdissection; "mock" or "SS" stands for mock-infected or SS1-infected, respectively; "2,7,14 and 28" refers to the length of infection; "1-4" corresponds to the numbers given to every animal.The cellular origin of the RNA is represented by "mucus producing" or pit cell, "parietal" or acid-producing cell and "chief" or zymogenic cell. Between 5 and 7 samples were harvested per timepoint and cell type. Where the first labelling reaction and hybridization did not produce sufficiently good data (less than half of all spots made a regression correlation cutoff of >0.6), both were repeated (indicated by the addition of "relabeled" to the array name). The differential regulation of genes can be analyzed in both a time and cell type specific manner using publicly available software. Cell Type: "mucus producing" or pit cell (pit), acid-producing cell (parietal) and zymogenic cell (chief) time_series_design

ORGANISM(S): Mus musculus

SUBMITTER: Anne Mueller

PROVIDER: E-GEOD-37938 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Profiling of microdissected gastric epithelial cells reveals a cell type-specific response to Helicobacter pylori infection.

Mueller Anne A Merrell D Scott DS Grimm Jan J Falkow Stanley S

Gastroenterology 20041101 5

<h4>Background and aims</h4>Helicobacter pylori colonizes the epithelial lining of the human stomach and is associated with disorders ranging from chronic gastritis to peptic ulcers and gastric cancer. We have explored the transcriptional response of the epithelium globally by applying a whole-genome approach to a murine model of infection.<h4>Methods</h4>The 3 major epithelial lineages of the stomach-the parietal, mucus-producing, and chief cells-were harvested from cryosections of infected and ...[more]

PMID: 15521014

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Dataset Information

Arrays of time course experiment (2-28 d) laser microdissected samples of H. pylori -infected mice

Publications

Profiling of microdissected gastric epithelial cells reveals a cell type-specific response to Helicobacter pylori infection.

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