DOI: 10.18129/B9.bioc.Single.mTEC.Transcriptomes    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see Single.mTEC.Transcriptomes.

Single Cell Transcriptome Data and Analysis of Mouse mTEC cells

Bioconductor version: 3.7

This data package contains the code used to analyse the single-cell RNA-seq and the bulk ATAC-seq data from the manuscript titled: Single-cell transcriptome analysis reveals coordinated ectopic-gene expression patterns in medullary thymic epithelial cells. This paper was published in Nature Immunology 16,933-941(2015). The data objects provided in this package has been pre-processed: the raw data files can be downloaded from ArrayExpress under the accession identifiers E-MTAB-3346 and E-MTAB-3624. The vignette of this data package provides a documented and reproducible workflow that includes the code that was used to generate each statistic and figure from the manuscript.

Author: Alejandro Reyes

Maintainer: Alejandro Reyes <alejandro.reyes at>

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PDF R Script Analysis of single cell mTEC data.
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biocViews ExperimentData
Version 1.8.0
License LGPL
Suggests DESeq2, GenomicRanges, GenomicFeatures, genefilter, statmod, gdata, RColorBrewer, ggplot2, gplots, cluster, clue, grid, gridExtra, ggbio, Gviz, geneplotter, matrixStats, pheatmap, BiocStyle, knitr
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