Bioconductor Topics

A data package

A subset of arrays from a large acute lymphoblastic leukemia (ALL) study

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

A Package for CLL Gene Expression Data

Methylation data of primary CLL samples in PACE project

Data to support sexually dimorphic and COPD differential analysis for gene expression and methylation.

COSMIC.67

CRC cell line dataset

Functional connections between drugs, genes and diseases as revealed by common gene-expression changes

DNA methylation-based machine learning models

Diffuse large B-cell lymphoma expression data

Poor prognosis colon cancer is defined by a molecularly distinct subtype and precursor lesion

Single-cell RNA-seq datasets of EMT responses from Cook et al. (2020)

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

Gene expression data from breast cancer cells under FGFR2 signalling perturbation

Master regulators of FGFR2 signalling and breast cancer risk

GEO accession data GSE103322 as a SingleCellExperiment

Data employed in the vignette of the GSVA package

Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping

T cell line infections with HIV-1 LAI (BRU)

Processed Harmonized TCGA Data of Five Selected Cancer Types

Annotation Package combining variant data from 1000 Genomes Project for Illumina HumanMethylation450 Bead Chip probes

LINCS Knock-Out Data Package

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

Transcriptomic Breast Cancer Datasets

Transcriptomic Ovarian Cancer Datasets

Transcriptomic Pancreatic Cancer Datasets

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

expression and CGH data on breast cancer cell lines

expression and copy number data on clear cell renal carcinoma samples

SELDI-TOF data of Breast cancer samples

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

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

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

Normal colon and cancer preprocessed affy data for antiProfile building.

ARACNe-inferred gene networks from TCGA tumor datasets