Transcriptomics

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An IL-23R/IL-22 circuit regulates epithelial serum amyloid A to promote local effector Th17 responses [RIP-Seq]


ABSTRACT: Purpose: The goals of this study are to compare RNAs bound by translating ribosomes in the presence or absence of Segmented Filamentous Bacteria (SFB) colonization of the small intestine Methods: EDTA fractions containing small intestine epithelial cells from SFB negative and SFB positive mice were harvested. TRAP assay enriching for ribosome bound fraction were enriched using anti-GFP antibodies against GFP-ribosomeL10 fusion protein. mRNA profiles were generated by deep sequencing, using Illumina HighSeq. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) and TopHat followed by CuffDiff. qRT–PCR validation was performed using SYBR Green assays. Results: SFB colonization upregulate a subset of mRNAs being translated by ribosomes. Conclusions: SFB changes small intestine epithelial cell translation profile.

ORGANISM(S): Mus musculus

PROVIDER: GSE70598 | GEO | 2015/10/09

SECONDARY ACCESSION(S): PRJNA289128

REPOSITORIES: GEO

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