Bioconductor Packages

Human IMR90 Fibroblast HiC data from Dixon et al. 2012

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

ITALICSData

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

LegATo: Longitudinal mEtaGenomic Analysis Toolkit

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

Data package for Multi-Omics Factor Analysis (MOFA)

Transcriptomic Breast Cancer Datasets

Transcriptomic Ovarian Cancer Datasets

Transcriptomic Pancreatic Cancer Datasets

Tools and functions for preprocessing 16S and metagenomic sequencing microbiome data

Datasets for benchmarking in microbiome research

Experimental Data for MutSeqR Examples

Data for the NCIgraph software package

Nanopore RNA-Seq Example data

NestLink an R data package to guide through Engineered Peptide Barcodes for In-Depth Analyzes of Binding Protein Ensembles

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

Data package for phylogenetic profile analysis using PhyloProfile tool

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

Companion data package for the ReactomeGSA package

Companion package to the 'Using R and Bioconductor for proteomics data analysis' publication

Supporting datasets for SBGNview 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

Integrating Multi-modal Single Cell Experiment datasets

An example cancer whole genome sequencing data for the SomatiCA package

Somatic Cancer Alterations

Collection of spatial omics datasets