Bioconductor Packages

CAGE data from FANTOM3 and FANTOM4 projects

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

Illumina HumanMethylation data on sorted blood cell populations

Illumina EPIC data on immunomagnetic sorted peripheral adult blood cells

Illumina 450k data on sorted cord blood cells

Illumina 450k/EPIC data on FACS and MACS umbilical blood cells

Illumina HumanMethylation data on sorted cord blood cell populations

Illumina HumanMethylation data on sorted frontal cortex cell populations

Gene Set Benchmark

GEO accession data GSE103322 as a SingleCellExperiment

Placental cell DNA methylation data from GEO accession GSE159526

GEO accession data GSE62944 as a SummarizedExperiment

Data employed in the vignette of the GSVA package

Data used in the examples and vignettes of the GWASTools package

Reference data for GenomicDistributions 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

Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping

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

T cell line infections with HIV-1 LAI (BRU)

16S rRNA Sequencing Data from the Human Microbiome Project

16s rRNA sequencing data from the Human Microbiome Project 2

Single-cell RNA-Seq for differentiating human skeletal muscle myoblasts (HSMM)

Data for the Harman package

Processed Harmonized TCGA Data of Five Selected Cancer Types

Data for the HelloRanges tutorial vignette

HiBED

Human IMR90 Fibroblast HiC data from Dixon et al. 2012

HiContacts companion data package

Collection of Bulk RNA-Seq Experiments With Many Replicates

Cell-to-cell expression variability followed by signal reinforcement progressively segregates early mouse lineages

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

Illumina microarray files (IDAT) for testing

Data package for JASPAR

Kinase PWMs based on data published by Johnson et al. 2023 and Yaron-Barir et al. 2024

KEGG Disease Datasets from GEO

LINCS Knock-Out Data Package

Marker gene information for LRcell R Bioconductor package

LegATo: Longitudinal mEtaGenomic Analysis Toolkit

Selected data from the HiC paper of E. Lieberman-Aiden et al. in Science (2009)

BS-seq data of H1 and IMR90 cell line excerpted from Lister et al. 2009

A lung cancer dataset that can be used with maPredictDSC package for developing outcome prediction models from Affymetrix CEL files.

Reads from Two Lung Cancer Cell Lines

M3Drop Example Data