Bioconductor Packages

HiBED

Human IMR90 Fibroblast HiC data from Dixon et al. 2012

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

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

LINCS Knock-Out Data Package

Marker gene information for LRcell R Bioconductor package

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

Reads from Two Lung Cancer Cell Lines

M3Drop Example Data

Example data for MEDIPS and QSEA packages

Example ChIP-Seq data for the MMDiff package

Collection of public MERFISH datasets

Transcriptomic Breast Cancer Datasets

Transcriptomic Ovarian Cancer Datasets

Transcriptomic Pancreatic Cancer Datasets

Multi-omics data access for studies investigating the effects of aging

Single-Cell -omics Data across Mouse Gastrulation and Early Organogenesis

Single-cell Transcriptomics Data of the Ageing Mouse Thymus

Experimental Data for MutSeqR Examples

Nanopore RNA-Seq Example data

Data for NxtIRF

Supporting data for package OMICsPCA

Promoter Capture Hi-C data

expression and copy number data on clear cell renal carcinoma samples

Data package with transcript expression obtained with kallisto from pasilla knock-down RNA-Seq data from Brooks et al.

Programmatic access to ProteinGym datasets in R/Bioconductor

P. tricornutum HPLC-ESI-MS Lipid Data from van Creveld et al. (2015)

Aligned reads from RNAseq experiment: Transcription profiling by high throughput sequencing of HNRNPC knockdown and control HeLa cells

An RRBS data set with 12 samples and 10,000 simulated DMRs

Companion data package for the ReactomeGSA package

Example SpatialFeatureExperiment datasets

Collection of spatial transcriptomics datasets in SpatialExperiment Bioconductor format

SimBenchData: a collection of 35 single-cell RNA-seq data covering a wide range of data characteristics

An example cancer whole genome sequencing data for the SomatiCA package

Somatic Cancer Alterations

The Cancer Genome Atlas Illumina 450k methylation example data

Data for the TCGAbiolinksGUI package

Experiment data for the TENET package

Single cell dataset from 10x in BUS format

Data from the 10X 1.3 Million Brain Cell Study

PBMC data from 10X Genomics

Visium spatial gene expression data by 10X Genomics

A Collection of Tumour Microenvironment Single-cell RNA Sequencing Datasets and Corresponding Metadata

Timer Quantification

A collection of trans-omics datasets across various biological systems

Data for the VariantTools tutorial