Bioconductor Packages

Data package for JASPAR 2018

Data package for JASPAR database (version 2020)

Data package for JASPAR database (version 2022)

Data package for JASPAR database (version 2024)

Disease Datasets from GEO

KEGG Disease Datasets from GEO

LINCS Knock-Out Data Package

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

LowMACAAnnotation

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 ChIP-Seq data for the MMDiff package

A set of annotation maps describing the Mouse Phenotype Ontology

Transcriptomic Breast Cancer Datasets

Transcriptomic Ovarian Cancer Datasets

Transcriptomic Pancreatic Cancer Datasets

Data for the NCIgraph software package

Subset of BAM files of human tumor and pooled normal sequencing data (Zhao et al. 2014) for the NGScopy package

Data required for getting the gene set scores with NetActivity package

expression and CGH data on breast cancer cell lines

Supporting data for package OMICsPCA

Ob/ob Mice Data on Normal and High Fat Diet

Orthology mapping package

Probe-level Expression Change Averaging

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

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

Standard regression functions in R enabled for parallel processing over large data-frames

RnaSeqSampleSizeData

Supporting datasets for SBGNview package

Sequence data from chromosome 4 of a small-cell lung tumor

A bioconductor package for sample quality check with next generation sequencing data

Integrating Multi-modal Single Cell Experiment datasets

An example cancer whole genome sequencing data for the SomatiCA package

Somatic Cancer Alterations

Annotated spatial transcriptomics datasets from 10x Xenium, NanoString CosMx and BGI STOmics.

The Cancer Genome Atlas Illumina 450k methylation example data

Data for TCGA Workflow

TCGA CRC 450 mRNA dataset

TCGA CRC 450 miRNA dataset

Experiment data for the TENET package

Transcriptome instability analysis

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

A Collection of DNA Methylation Datasets for Human Tumour Samples and Matching Normal Samples

Data for the VariantTools tutorial