We are analyzing https://link.springer.com/article/10.1186/s13059-016-1079-9.

Title:
Extensive RNA editing and splicing increase immune self-representation diversity in medullary thymic epithelial cells | Genome Biology
Description:
Background In order to become functionally competent but harmless mediators of the immune system, T cells undergo a strict educational program in the thymus, where they learn to discriminate between self and non-self. This educational program is, to a large extent, mediated by medullary thymic epithelial cells that have a unique capacity to express, and subsequently present, a large fraction of body antigens. While the scope of promiscuously expressed genes by medullary thymic epithelial cells is well-established, relatively little is known about the expression of variants that are generated by co-transcriptional and post-transcriptional processes. Results Our study reveals that in comparison to other cell types, medullary thymic epithelial cells display significantly higher levels of alternative splicing, as well as A-to-I and C-to-U RNA editing, which thereby further expand the diversity of their self-antigen repertoire. Interestingly, Aire, the key mediator of promiscuous gene expression in these cells, plays a limited role in the regulation of these transcriptional processes. Conclusions Our results highlight RNA processing as another layer by which the immune system assures a comprehensive self-representation in the thymus which is required for the establishment of self-tolerance and prevention of autoimmunity.
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Keywords {🔍}

mtecs, pubmed, editing, article, google, scholar, tissues, gene, expressed, cas, expression, sites, rna, genes, cells, reads, central, high, number, tissue, levels, fig, analysis, cell, sample, genome, thymic, splice, splicing, epithelial, brain, tra, examined, ctou, rnaediting, rate, junctions, level, data, results, types, rnaseq, mtechi, mature, population, edited, alternative, aire, protein, thymus,

Topics {✒️}

poly-a-selected transcriptome libraries central t-cell tolerance tissue-restricted rna-splicing products article download pdf aire-dependent tissue-restricted antigen single-cell genomics reveal article danan-gotthold specific pathogen-free conditions high-throughput sequencing data replicate rna-seq data thymic medulla rna-editing site conservation mtecs vis-à-vis thymic epithelial cells paris-descartes ethical committee escaped central tolerance rna-seq read uniquely tissue-specific gene signature central immunological tolerance full size image low mhc-ii [mteclo] central tolerance mechanisms high mhc-ii [mtechi] tissue-restricted splice junctions mhc-ii low mtecs mhc-ii high mtecs single transcriptional regulator extensive rna processing global rna-editing rate tissue-restricted splice variants full access aire-deficient mtecs displayed extensive rna editing unique hyper-editing sites european research council tissue-restricted antigen genes rna-seq datasets obtained high rna-editing levels tissue-specific splice variants apobec-1-mediated rna editing highest rna-editing capacity highest rna-editing levels high rna-editing rate transcriptome-wide regulation synonymous rna-editing sites privacy choices/manage cookies global transcriptome analysis white rectangle denotes high-throughput sequencing high rna-editing level

Schema {🗺️}

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      headline:Extensive RNA editing and splicing increase immune self-representation diversity in medullary thymic epithelial cells
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         Thymus
         Alternative splicing
         RNA editing
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         Self-tolerance
         Animal Genetics and Genomics
         Human Genetics
         Plant Genetics and Genomics
         Microbial Genetics and Genomics
         Bioinformatics
         Evolutionary Biology
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