DOI: 10.18129/B9.bioc.BioPlex  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see BioPlex.

R-side access to BioPlex protein-protein interaction data

Bioconductor version: 3.16

The BioPlex package implements access to the BioPlex protein-protein interaction networks and related resources from within R. Besides protein-protein interaction networks for HEK293 and HCT116 cells, this includes access to CORUM protein complex data, and transcriptome and proteome data for the two cell lines. Functionality focuses on importing the various data resources and storing them in dedicated Bioconductor data structures, as a foundation for integrative downstream analysis of the data.

Author: Ludwig Geistlinger [aut, cre], Robert Gentleman [aut]

Maintainer: Ludwig Geistlinger <ludwig_geistlinger at>

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


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biocViews CellCulture, ColonCancerData, ExperimentData, ExperimentHub, ExpressionData, GEO, Genome, Homo_sapiens_Data, MassSpectrometryData, Proteome, RNASeqData, ReproducibleResearch
Version 1.4.3
In Bioconductor since BioC 3.14 (R-4.1) (1.5 years)
License Artistic-2.0
Depends R (>= 4.1.0), SummarizedExperiment
Imports BiocFileCache, GenomicRanges, GenomeInfoDb, GEOquery, graph, methods, utils
Suggests AnnotationDbi, AnnotationHub, BiocStyle, DEXSeq, ExperimentHub, GenomicFeatures, S4Vectors, depmap, knitr, rmarkdown
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