Bioconductor Packages

LRBaseDbs for AnnotationHub

MeSHDbs for AnnotationHub

Metabolites and proteins linked to PathBank pathways (for AnnotationHub)

Metabolites linked to WikiPathways pathways (for AnnotationHub)

R-side access to BioPlex protein-protein interaction data

Annotations for City of Hope CpG Island Analysis Pipeline

Genomic coordinates of CTCF binding sites, with orientation

Pre-processed data for use with the CellMapper package

VST normalized RNA-Sequencing data with annotations for multiple species samples from Bgee

Data Package for DMRcate

Example DNAm Data for DMRsegal

A set of annotation maps describing the entire Disease Ontology

Orchestrating Blood Radiation Transcriptomic Data

Test Files for Single-Cell Droplet Utilities

Data for the ELMER package

Single-cell RNA-seq datasets of EMT responses from Cook et al. (2020)

Data for the EpiMix package

Download datasets from EMBL-EBI Expression Atlas

Tumor, tumor-adjacent normal, and healthy colorectal transcriptomes as SummarizedExperiment objects

Gene expression data from breast cancer cells under FGFR2 signalling perturbation

Master regulators of FGFR2 signalling and breast cancer risk

A set of annotation maps describing the entire Gene Ontology

GEO accession data GSE103322 as a SingleCellExperiment

Data employed in the vignette of the GSVA package

Data used in the examples and vignettes of the GWASTools package

Data package with transcript expression and bi-allelic genotypes from the GEUVADIS project

Accessing The Datasets Of The Human Cell Atlas in R/Bioconductor

Provide programmatic access to the tonsil cell atlas datasets

Collection of high-dimensional cytometry benchmark datasets in Bioconductor object formats

A set of annotation maps describing the entire Human Disease Ontology

A set of annotation maps describing the entire Human Phenotype Ontology

Data for the Harman package

Collection of Bulk RNA-Seq Experiments With Many Replicates

GEO accession GSE64985 and ArrayExpress accession E-MTAB-62 as ExpressionSet objects

Long-read RNA-seq gene count data from human retinal organoids

Reproduce figures in IHW paper

Annotation Package combining variant data from 1000 Genomes Project for Illumina HumanMethylation450 Bead Chip probes

Data package for JASPAR 2018

Data package for JASPAR database (version 2020)

Data package for JASPAR database (version 2022)

Data package for JASPAR database (version 2024)

LINCS Knock-Out Data Package

Marker gene information for LRcell R Bioconductor package

LowMACAAnnotation

M3Drop Example Data

A set of annotation maps describing the Mouse Phenotype Ontology

Collection of public MERFISH datasets

Transcriptomic Breast Cancer Datasets

Transcriptomic Ovarian Cancer Datasets

Transcriptomic Pancreatic Cancer Datasets