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Ribosome profiling on SUM159PT cells grown in vitro or in vivo

ABSTRACT: SUM159PT cells were grown either in vitro (in culture) or in vivo (mouse), after which RPL10a tagged with GFP was used to perform extraction by immoprecipitation and subsequent ribosome profiling

ORGANISM(S): Homo sapiens

PROVIDER: GSE74512 | GEO | 2016/02/17

SECONDARY ACCESSION(S): PRJNA300625

REPOSITORIES: GEO

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Ribosome profiling on SUM159PT cells grown in vitro or in vivo

Project description:SUM159PT cells were grown either in vitro (in culture) or in vivo (mouse), after which RPL10a tagged with GFP was used to perform extraction by immoprecipitation and subsequent ribosome profiling Two batches of in vitro grown cells, each having 2 replicates. Two batches of in vivo grown cells from tumors grown in two individual mice, each having tumors on left (first batch) and right side (second batch). Extraction and ribosome profiling was done independently for the two batches of samples.

2016-02-17 | E-GEOD-74512 | biostudies-arrayexpress

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A stem cell roadmap of ribosome heterogeneity reveals a function for RPL10A in mesoderm production

Project description:Recent findings suggest that the ribosome itself modulates gene expression. However, whether ribosomes change composition across cell types or control cell fate remains unknown. Here, employing quantitative mass spectrometry during human embryonic stem cell differentiation, we identify dozens of ribosome composition changes underlying cell fate specification. We observe upregulation of RPL10A/uL1-containing ribosomes in the primitive streak followed by progressive decreases during mesoderm differentiation. An Rpl10a loss-of-function allele in mice causes striking early mesodermal phenotypes, including posterior trunk truncations, and inhibits paraxial mesoderm production in culture. Ribosome profiling in Rpl10a loss-of-function mice reveals decreased translation of mesoderm regulators, including Wnt pathway mRNAs, which are also enriched on RPL10A/uL1-containing ribosomes. We further show that RPL10A/uL1 regulates canonical and non-canonical Wnt signaling during stem cell differentiation and in the developing embryo. These findings reveal unexpected ribosome composition modularity that controls differentiation and development through the specialized translation of key signaling networks.

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Homo sapiens strain:SUM159PT

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Gene expression profile at single cell level of SUM149PT, SUM185PE, SUM229PE, SUM159PT and SUM1315MO2 cell lines

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Methods comparison for ribosome profiling

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