Bioconductor Packages

LRBaseDbs for AnnotationHub

MeSHDbs for AnnotationHub

Metabolites and proteins linked to PathBank pathways (for AnnotationHub)

Metabolites linked to WikiPathways pathways (for AnnotationHub)

Affymetrix Human Genome U133A 2.0 Array (GPL571) Expression Data Package

Affyhgu133Plus2Expr (GPL570) Expression Data Package

Affymetrix Human hgu133a Array (GPL96) Expression Data Package

Affymetrix Mouse Genome 430 2.0 Array (GPL1261) Expression Data Package

100+ Curated Breast Cancer Gene Expression Data sets

Datasets and test data files for the BentoBox package

R-side access to BioPlex protein-protein interaction data

"Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oleś M, Lu J et al. - experimental data and complete analysis

Annotations for City of Hope CpG Island Analysis Pipeline

Genomic coordinates of CTCF binding sites, with orientation

ChIC package data

ChIP-seq Target Databases for TFEA.ChIP

ChIPXpress Pre-built Databases

Chimp and human brain data package

A set of annotation maps describing the entire Disease Ontology

Experimental data and documented source code for the paper "A Map of Directional Genetic Interactions in a Metazoan Cell"

Orchestrating Blood Radiation Transcriptomic Data

Drug versus Disease Data

ChIP-seq data of ORC-binding sites in Yeast excerpted from Eaton et al. 2010

Download datasets from EMBL-EBI Expression Atlas

Human Functional Interactions (FIs) for splineTimeR package

Tumor, tumor-adjacent normal, and healthy colorectal transcriptomes as SummarizedExperiment objects

Various data sets for use with the FunciSNP package

all 90 hapmap CEU samples, 47K expression, 4mm SNP

A set of annotation maps describing the entire Gene Ontology

GEO accession data GSE103322 as a SingleCellExperiment

Placental cell DNA methylation data from GEO accession GSE159526

Data used in the examples and vignettes of the GWASTools package

A set of annotation maps describing the entire Human Disease Ontology

16S rRNA Sequencing Data from the Human Microbiome Project

16s rRNA sequencing data from the Human Microbiome Project 2

A set of annotation maps describing the entire Human Phenotype Ontology

Processed Harmonized TCGA Data of Five Selected Cancer Types

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

Reproduce figures in IHW paper

ITALICSData

Data package for JASPAR databases

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)

Example Junction Count data for use with JunctionSeq

Disease Datasets from GEO

KEGG Disease Datasets from GEO