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

R-side access to BioPlex protein-protein interaction data

Annotations for City of Hope CpG Island Analysis Pipeline

Genomic coordinates of CTCF binding sites, with orientation

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

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

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

A set of annotation maps describing the entire Human Phenotype Ontology

Human IMR90 Fibroblast HiC data from Dixon et al. 2012

GEO accession GSE64985 and ArrayExpress accession E-MTAB-62 as ExpressionSet objects

ITALICSData

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

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.

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

Data required for getting the gene set scores with NetActivity package

Supporting data for package OMICsPCA

Ob/ob Mice Data on Normal and High Fat Diet

Orthology mapping package