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Expression profiling of Stomach and Colon of Spdef Knockout mice

ABSTRACT: Gene expression profiling on stomach and colon tissue from Spdef knockout, heterozygous and wild type mice.

ORGANISM(S): Mus musculus

PROVIDER: GSE20299 | GEO | 2010/12/07

SECONDARY ACCESSION(S): PRJNA125333

REPOSITORIES: GEO

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Expression data from Spdef +/+ and Spdef -/- mice

Project description:Goblet cell numbers decrease within the conjunctival epithelium in drying and cicatrizing ocular surface diseases. Factors regulating goblet cell differentiation in conjunctival epithelium are unknown. Recent data indicate that the transcription factor SAM-pointed domain epithelial-specific transcription factor (Spdef) is essential for goblet cell differentiation in tracheobronchial and gastrointestinal epithelium of mice. Using Spdef -/- mice, we determined that Spdef is required for conjunctival goblet cell differentiation and that Spdef -/- mice, which lack conjunctival goblet cells, have significantly increased corneal surface fluorescein staining and tear volume, a phenotype consistent with dry eye. Microarray analysis of conjunctival epithelium in Spdef -/- mice identified 43 signficantly upregulated genes and 110 signficantly downregulated genes in the conjunctival epithelium of Spdef -/- mice compared to that of Spdef +/+ control mice (3 fold change, p<0.01). Downregulated genes of particular interested included goblet cell-specific genes (Muc5ac, Tff1, Gcnt3). Upregulated genes included epithelial cell differentiation/keratinization genes (Sprr2h, Tgm1) and pro-inflammatory genes (Il1-Î±, Il-1Î², Tnf-Î±), all of which are upregulated in dry eye. Interestingly, four Wnt pathway genes were downregulated. Conjunctival epithelium of Spdef +/+ and Spdef -/- mice was collected by laser capture microdissection for RNA extraction and hybridization on Affymetrix microarrays to determine if gene expression patterns in the conjunctival epithelium of Spdef -/- mice is altered compared to that of Spdef +/+ mice.

2013-02-08 | E-GEOD-44101 | biostudies-arrayexpress

Expression data from Spdef +/+ and Spdef -/- mice

Project description:Goblet cell numbers decrease within the conjunctival epithelium in drying and cicatrizing ocular surface diseases. Factors regulating goblet cell differentiation in conjunctival epithelium are unknown. Recent data indicate that the transcription factor SAM-pointed domain epithelial-specific transcription factor (Spdef) is essential for goblet cell differentiation in tracheobronchial and gastrointestinal epithelium of mice. Using Spdef -/- mice, we determined that Spdef is required for conjunctival goblet cell differentiation and that Spdef -/- mice, which lack conjunctival goblet cells, have significantly increased corneal surface fluorescein staining and tear volume, a phenotype consistent with dry eye. Microarray analysis of conjunctival epithelium in Spdef -/- mice identified 43 signficantly upregulated genes and 110 signficantly downregulated genes in the conjunctival epithelium of Spdef -/- mice compared to that of Spdef +/+ control mice (3 fold change, p<0.01). Downregulated genes of particular interested included goblet cell-specific genes (Muc5ac, Tff1, Gcnt3). Upregulated genes included epithelial cell differentiation/keratinization genes (Sprr2h, Tgm1) and pro-inflammatory genes (Il1-α, Il-1β, Tnf-α), all of which are upregulated in dry eye. Interestingly, four Wnt pathway genes were downregulated.

2013-02-08 | GSE44101 | GEO

Transcription profiling of wild type mice stomach and colon samples

Project description:Comparison of stomach and colon in normal mice.

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AQP8 knockout project - 2DE of wild and AQP8 knockout mice colon

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Project description:Expression profiling of Stomach and Colon of Spdef Knockout mice

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Global gene expression profile of stomach from wild-type and NHE4-knockout mice.

Project description:The objective of this study was to identify changes in gene expression levels between wild-type and NHE4-knockout stomach. 6 wild-type and 6 NHE4-knockout stomach RNA samples were compared. Total RNA was collected from both male and female adult (between 8 and 12 weeks of age) wild-type and NHE4-null mice on a mixed 129 Black Swiss background. With the exception of one, all comparisons were done between wild-type and NHE4-null samples from littermate age- and gender-matched siblings.

2010-07-07 | E-GEOD-19099 | biostudies-arrayexpress

Global gene expression profile of stomach from wild-type and NHE4-knockout mice.

Project description:The objective of this study was to identify changes in gene expression levels between wild-type and NHE4-knockout stomach.

2010-07-07 | GSE19099 | GEO

Pattern of Islr knockout mouse colon gene expression

Project description:To further understand different gene expression of islr knockout mouse colon and normal colon, we have employed colon samples microarray expression profiling as a discovery platform to identify different genes with Islr knockout mouse colon and normal colon. Comparison with normal colon, significantly upgene is 779 and downgene is 996 in knockout group.

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Genes regulated by SPDEF or FOXA3 in A549 lung carcinoma cells [RNA-seq]

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Single cell gene expression analysis of mouse CD45.2+ intraepithelial lymphocyes (IELs) from stomach, small intestine, cecum and colon.

Project description:To understand the diversity of IELs in the gastrointestinal tract, CD45.2+ IELs from stomach, small intestine, cecum and colon of C57BL/6 mice were isolated for single cell RNA sequencing.

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