Bioconductor Packages

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

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

Transcriptomic Breast Cancer Datasets

Transcriptomic Ovarian Cancer Datasets

Transcriptomic Pancreatic Cancer Datasets

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

Companion data package for the ReactomeGSA package

Supporting datasets for SBGNview package

Example SpatialFeatureExperiment datasets

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

The Cancer Genome Atlas Illumina 450k methylation example data

Experiment data for the TENET package

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

Whole Exome Sequencing (WES) of chromosome 22 401st to 500th exon from the 1000 Genomes (1KG) Project by the Washington University Genome Sequencing Center (WUGSC).

Mappability tracks of Whole-genome Sequencing from the ENCODE Project

EBI/PSB cross-hybridisation study package

Affymetrix Data for Demonstration Purpose

RangedSummarizedExperiment for RNA-Seq in airway smooth muscle cells, by Himes et al PLoS One 2014

Normal colon and cancer preprocessed affy data for antiProfile building.

ARACNe-inferred gene networks from TCGA tumor datasets

Human B-cell transcriptional interactome and normal human B-cell expression data

Data Package for Biscuiteer