DOI: 10.18129/B9.bioc.dorothea    

This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see dorothea.

Collection Of Human And Mouse TF Regulons

Bioconductor version: 3.12

This package contains human and mouse TF regulons. The human regulons were curated and collected from different types of evidence such as literature curated resources, ChIP-seq peaks, TF binding site motifs and interactions inferred directly from gene expression. The mouse regulons were constructed by mapping the human gene symbols to their orthologs in mice. Those regulons can be coupled with any statistical method that aims to analyse gene sets to infer TF activity from gene expression data. Preferably the statistical method viper is used.

Author: Christian H. Holland [cre, aut] , Luz Garcia-Alonso [aut], Alberto Valdeolivas [ctb], Minoo Ashtiani [ctb], Attila Gabor [ctb]

Maintainer: Christian H. Holland <cholland2408 at>

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HTML R Script TF activity inference from bulk transcriptomic data with DoRothEA as regulon resource.
HTML R Script TF activity inference from scRNA-seq data with DoRothEA as regulon resource.
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biocViews ExperimentData, Homo_sapiens_Data, Mus_musculus_Data
Version 1.2.2
License GPL-3 + file LICENSE
Depends R (>= 4.0)
Imports dplyr, magrittr, bcellViper, viper
Suggests Biobase, BiocStyle, knitr, pheatmap, pkgdown, rmarkdown, Seurat, SingleCellExperiment, SummarizedExperiment, testthat (>= 2.1.0), tibble, tidyr, utils
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