DOI: 10.18129/B9.bioc.airway  

This is the development version of airway; for the stable release version, see airway.

RangedSummarizedExperiment for RNA-Seq in airway smooth muscle cells, by Himes et al PLoS One 2014

Bioconductor version: Development (3.18)

This package provides a RangedSummarizedExperiment object of read counts in genes for an RNA-Seq experiment on four human airway smooth muscle cell lines treated with dexamethasone. Details on the gene model and read counting procedure are provided in the package vignette. The citation for the experiment is: Himes BE, Jiang X, Wagner P, Hu R, Wang Q, Klanderman B, Whitaker RM, Duan Q, Lasky-Su J, Nikolos C, Jester W, Johnson M, Panettieri R Jr, Tantisira KG, Weiss ST, Lu Q. 'RNA-Seq Transcriptome Profiling Identifies CRISPLD2 as a Glucocorticoid Responsive Gene that Modulates Cytokine Function in Airway Smooth Muscle Cells.' PLoS One. 2014 Jun 13;9(6):e99625. PMID: 24926665. GEO: GSE52778.

Author: Michael Love

Maintainer: Michael Love <michaelisaiahlove at>

Citation (from within R, enter citation("airway")):


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HTML R Script Airway smooth muscle cells
PDF   Reference Manual


biocViews ExperimentData, GEO, RNASeqData, SequencingData
Version 1.21.0
License LGPL
Depends R (>= 3.5.0), SummarizedExperiment
Suggests knitr, GEOquery, markdown
Depends On Me rnaseqGene
Imports Me consensusDE, NetActivity
Suggests Me apeglm, awst, biobroom, BioCor, BiocSet, CeTF, DelayedArray, DESeq2, EnhancedVolcano, EnrichmentBrowser, ExperimentSubset, ideal, IHW, IHWpaper, InteractiveComplexHeatmap, iSEEde, iSEEpathways, iSEEu, OPWeight, pathwayPCA, pcaExplorer, PCAtools, progeny, RegParallel, runibic, SummarizedExperiment, TTMap, weitrix
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