Intestinal organoids are complex three-dimensional structures that mimic cell type composition and tissue organization of the intestine by recapitulating the self-organizing capacity of cell populations derived from a single stem cell. Crucial in this process is a first symmetry-breaking event, in which only a fraction of identical cells in a symmetrical cyst differentiate into Paneth cells, which in turn generates the stem cell niche and leads to asymmetric structures such as crypts and villi. We here combine a quantitative single-cell gene expression and imaging approach to characterize the development of intestinal organoids from a single cell. We show that intestinal organoid development follows a regeneration process driven by transient Yap1 activation. Cell-to-cell variability in Yap1, emerging in symmetrical cysts, initiates a Notch/Dll1 lateral inhibition event driving the symmetry-breaking event and the formation of the first Paneth cell. Our findings reveal how single cells exposed to a uniform growth-promoting environment have the intrinsic ability to generate emergent, self-organized behavior resulting in the formation of complex multicellular asymmetric structures. Overall design: Single cell RNA sequencing of single cells isolated from intestinal organoids day3 and intestinal organoids day 5
Self-organization and symmetry breaking in intestinal organoid development.
Age, Specimen part, Cell line, Subject
View SamplesWe have used primary MEFs derived from wild type and E2F4 null mice growing asynchrounously in serum to generate a signature for E2F4 pathway activation. 10 wild type and 10 E2F4 null samples were each assayed using the Affymetrics Mouse Genome 430A 2.0 array.
Patterns of cell signaling pathway activation that characterize mammary development.
No sample metadata fields
View SamplesEDI3 was shown to be relevant in cell migration, adhesion and spreading. Gene expression analysis was performed to determine the effect of EDI3 silencing in MCF7 cells in order to gain insight into potential underlying mechanisms.
EDI3 links choline metabolism to integrin expression, cell adhesion and spreading.
Specimen part, Cell line
View SamplesPlacentation differs in the BN rat strain when compared to HSD and DSS rat strains. Intrauterine trophoblast invasion is shallow and the junctional zone is underdeveloped in the BN rat. These structural differences are striking but their quantification is not conducive to high throughput analyses. In the rat, the junctional zone can be readily dissected and is more homogenous than other components of the placentation site. HSD and BN rat gestation day 18.5 junctional zone gene expression profiles were determined using DNA microarray analysis to identity placenta-associate quantitate traits.
Chromosome-substituted rat strains provide insights into the genetics of placentation.
Specimen part
View SamplesWe have made use of the E-myc transgenic mouse, a model for the study of B-cell lymphoma development that is initiated through a defined genetic alteration, to explore the contributions of additional somatic alterations that contribute to the heterogeneity of the resulting tumors. As one example of such heterogeneity, we have focused on the observation that lymphomas develop in E-myc mice with a variable time of onset. Twenty-five early-onset, 25 late-onset lymphomas and 10 normal samples were each assayed on an Affymetrix Mouse Genome 430 2.0 array.
Utilization of pathway signatures to reveal distinct types of B lymphoma in the Emicro-myc model and human diffuse large B-cell lymphoma.
No sample metadata fields
View SamplesThis SuperSeries is composed of the SubSeries listed below.
Utilization of the Eμ-Myc mouse to model heterogeneity of therapeutic response.
Specimen part
View SamplesWe used gene expression data from E-myc mouse lymphomas to test various genomic signatures and select lymphomas for further study
Utilization of the Eμ-Myc mouse to model heterogeneity of therapeutic response.
Specimen part
View SamplesWe used gene expression data from E-myc mouse lymphomas to perform unsupervised analyses that identified two lymphoma subgroups.
Utilization of the Eμ-Myc mouse to model heterogeneity of therapeutic response.
Specimen part
View SamplesWe used gene expression data from E-myc mouse lymphomas to test various genomic signatures and select lymphomas for further study
Utilization of the Eμ-Myc mouse to model heterogeneity of therapeutic response.
Specimen part
View SamplesMolecular pathways activated in MALT lymphoma are not well defined.
Gene expression profiling of pulmonary mucosa-associated lymphoid tissue lymphoma identifies new biologic insights with potential diagnostic and therapeutic applications.
Sex
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