publication_authors:Gupta D Results

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Microarray (328)

Platform

Affymetrix Human Gene 1.1 ST Array (hugene11st) (285)

Affymetrix Mouse Genome 430 2.0 Array (mouse4302) (43)

Includes Publication

GSE26076

Mouse conjunctival forniceal gene expression during postnatal development and its regulation by Kruppel-like factor 4

Mus musculus
12 Downloadable Samples

Description

Purpose: To identify the changes in postnatal mouse conjunctival forniceal gene expression and their regulation by Klf4 around eye opening stage when the goblet cells first appear.

Publication Title

Mouse conjunctival forniceal gene expression during postnatal development and its regulation by Kruppel-like factor 4.

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GSE48007

Targeted disruption of Hotair leads to homeotic transformation and de-repression of imprinted genes

Mus musculus
6 Downloadable Samples

Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Targeted disruption of Hotair leads to homeotic transformation and gene derepression.

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Specimen part

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GSE48004

Targeted disruption of Hotair leads to homeotic transformation and de-repression of imprinted genes [Microarray Analysis]

Mus musculus
6 Downloadable Samples

Description

Long noncoding RNAs (lncRNAs) are thought to be prevalent regulators of gene expression, but the consequences of lncRNA inactivation in vivo are mostly unknown. Here we show that targeted deletion of mouse Hotair lncRNA leads to de-repression of hundreds of genes, resulting in homeotic transformation of the spine and malformation of metacarpal-carpal bones. RNA-seq and conditional inactivation reveal an ongoing requirement of Hotair to repress HoxD genes and multiple imprinted loci such as Dlk1-Meg3 and Igf2-H19. Hotair binds to both Polycomb repressive complex 2 that methylates histone H3 at lysine 27 (H3K27) and Lsd1 complex that demethylates histone H3 at lysine 4 (H3K4) in vivo. Hotair inactivation causes coordinate H3K27me3 loss and H3K4me3 gain at select target genes throughout the genome. These results reveal a shared regulatory mechanism to enforce silent chromatin state at Hox and imprinted genes via Hotair lncRNA.

Publication Title

Targeted disruption of Hotair leads to homeotic transformation and gene derepression.

Sample Metadata Fields

Specimen part

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GSE17797

UGE and UGM Reveal Novel Signaling Pathways and Ligand-Receptor Interactions in the Primitive Prostate Stem Cell Niche

Mus musculus
19 Downloadable Samples

Description

We isolated fetal murine urogenital sinus epithelium and urogenital sinus mesenchyme and determined their global gene expression profiles to define their differentially expressed regulators. To distinguish gene expression patterns that are shared by other developing epithelial/mesenchymal compartments in the embryo from those that pertain to the prostate stem cell niche, we also determine the global gene expression of epidermis and dermis of the same embryos. We identified a distinctive core of transcripts that were differentially regulated in the prostate stem cell niche. Our analysis indicates that several of the key transcriptional components that are likely to be active in the embryonic prostate stem cell niche regulate processes such as self-renewal (e.g., E2f and Ap2), lipid metabolism (e.g., Serbp1) and cell migration (e.g., Areb6 and Rreb1). Several of the promoter binding motifs that are enriched in the profiles are shared between the prostate epithelial/mesenchymal compartments and their epidermis/dermis counterparts, indicating their likely relevance in epithelial/mesenchymal signaling in primitive cellular compartments. We also focused on defining ligand-receptor interactions that may be relevant in controlling signals in the stem cell niche and identified the Wnt/beta-catenin, ephrin, Notch, sonic hedgehog, FGF, TGF-beta and bone morphogenic signaling pathways as being of likely relevance in the prostate stem cell niches. Members of the integrins family including those that bind extracellular matrix proteins such as laminin and activate latent TGF-beta are also expressed in the prostate niche.development.