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Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of mouse laser captured small intestine isolated fom normal and germ free animals

ABSTRACT: This study delineated how small intestinal resident microflora impact gene expression in Paneth cells. Experiment Overall Design: Paneth cells were isolated by laser capture microdissection from the small intestines of germ-free and conventionalized (10 day) mice. RNAs from 3 mice per group were pooled, and duplicate RNAs from each group were amplified and hybridized to Affymetrix arrays.

ORGANISM(S): Mus musculus

SUBMITTER: Lora Hooper

PROVIDER: E-GEOD-5156 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Symbiotic bacteria direct expression of an intestinal bactericidal lectin.

Cash Heather L HL Whitham Cecilia V CV Behrendt Cassie L CL Hooper Lora V LV

Science (New York, N.Y.) 20060801 5790

The mammalian intestine harbors complex societies of beneficial bacteria that are maintained in the lumen with minimal penetration of mucosal surfaces. Microbial colonization of germ-free mice triggers epithelial expression of RegIIIgamma, a secreted C-type lectin. RegIIIgamma binds intestinal bacteria but lacks the complement recruitment domains present in other microbe-binding mammalian C-type lectins. We show that RegIIIgamma and its human counterpart, HIP/PAP, are directly antimicrobial prot ...[more]

PMID: 16931762

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Transcription profiling by array of Paneth cells and whole ileum from human Crohn's disease patient ileo-colic resection tissue

Project description:Transcriptional profiling of microscopically laser dissected Paneth cells and whole thickness ileum tissue from the proximal margins of archived formalin-fixed, paraffin-embedded ileo-colic resection samples.

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Gene expression profiles of components isolated from developing kidney at E11.5, E12.5 & E15.5 using LCM. (GUDMAP Series ID: 10)

Project description:The long term objective is to create an encyclopedia of the expression levels of all genes in multiple components of the developing kidney. The central thesis is straightforward. The combination of laser capture microdissection (LCM) plus microarray analysis offers a powerful, efficient and effective method for the creation of a global gene expression atlas of the developing kidney. Microarrays with essentially complete genome coverage can be used to quantitate expression levels of every gene in laser capture microdissected components of the developing kidney. The ensuing rapid read-out provides an expression atlas that is more sensitive, more economical and more complete than would be possible by in situ hybridizations alone. Keywords: Comparison of kidney components. At different developmental time points we isolate discrete elements of the kidney by using laser capture microdissection and then define their gene expression profiles with microarrays.

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Transcription profiling of Paneth cells from Atg16l1hm mice with CR6 virus

Project description:Transcription profiling of Paneth cells from Atg16l1hm mice with CR6 virus

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Transcription profiling by array of mouse Paneth cells from Atg16l1 mutant and wild type strains

Project description:Transcription profiling of Paneth cells from Atg16l1hm mice with CR6 virus. Normalized data is provided as an additional file on the FTP site for this experiment.

2010-04-12 | E-TABM-958 | biostudies-arrayexpress

Microarray of laser capture microdissected Paneth cells from Atg16l1 T300A and wildtype littermates mice that were either exposed or not with mainstream cigarette smoking for 6 weeks

Project description:We found that mainstream cigarette smoking (4 cigarettes/day, 5 days/week for 2 weeks using Kentucky Research Cigarettes 3R4F) resulted in >20% decrease in the percentage of normal Paneth cell population in Atg16l1 T300A mice but showed minimal effect wildtype littermate control mice, indicating that Atg16l1 T300A polymorphism confers sensitivity to cigarette smoking-induced Paneth cell damage. We performed transcriptional profiling to identify molecular mechanisms associated with Paneth cell defect in Atg16l1 T300A mice exposed to cigarette smoking. Female mice were used at 4-5 weeks of age. Cigarette smoking was performed using smoking chamber with the dosage and schedule as described above. The Paneth cells of the mice were harvested by laser capture microdissection for transcriptomic analysis after completing 6 weeks of smoking.

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Gene expression analysis of crypt base epithelial cells from WT and Nod2-/- mice

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