Bioconductor Packages

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

Data for the Harman package

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

ITALICSData

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

Disease Datasets from GEO

KEGG Disease Datasets from GEO

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)

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

Experimental Data Package: MAQCsubset

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

Data for the NCIgraph software package

Nanopore RNA-Seq Example data

Data required for getting the gene set scores with NetActivity package

Data for NxtIRF

Supporting data for package OMICsPCA

Ob/ob Mice Data on Normal and High Fat Diet

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.

Experimental data for the PathNet package

SELDI-TOF data of Breast cancer samples

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

Supporting datasets for SBGNview package