560 whole-genome sequenced breast cancers - EGA European Genome-Phenome Archive

Study ID	Alternative Stable ID	Type
EGAS00001001178		Other

Study ID

Alternative Stable ID

Type

EGAS00001001178

Other

Study Description

A comprehensive characterisation and analysis of 560 human breast cancers through genome-wide approaches including genomics, transcriptomics and epigenomics.

Dataset ID	Description	Technology	Samples
EGAD00010000915	Affymetrix SNP6.0 breast cancer genome sequencing data Affymetrix SNP6.0 breast cancer genome sequencing data	Affymetrix SNP6.0	344
EGAD00010000916	BASIS breast cancer DNA methylation Illumina 450k BASIS breast cancer DNA methylation Illumina 450k	Illumina 450k	457
EGAD00010000917	399 tumors profiled using Agilent miRNA microarrays (Product Number G4872A, design ID 046064). The arrays are based on miRBase release 19.0 and 2006 human miRNAs are represented. 150 ng total RNA was used as input. 399 tumors profiled using Agilent miRNA microarrays (Product Number G4872A, design ID 046064). The arrays are based on miRBase release 19.0 and 2006 human miRNAs are represented. 150 ng total RNA was used as input.	Agilent miRNA microarrays	399
EGAD00010001911	Fresh frozen breast cancer H&E tissue images collected and annotated by the International Cancer Genome Consortium (ICGC), that included the BASIS collaboration. Associated with whole genome sequence data as originally described by Nik-Zainal et al, Nature, 2016 (DOI: 10.1038/nature17676) and deposited with ID EGAS00001001178 Fresh frozen breast cancer H&E tissue images collected and annotated by the International Cancer Genome Consortium (ICGC), that included the BASIS collaboration. Associated with whole genome sequence data as originally described by Nik-Zainal et al, Nature, 2016 (DOI: 10.1038/nature17676) and deposited with ID EGAS00001001178	H and E image	151

Dataset ID

Description

Technology

Samples

EGAD00010000915

Affymetrix SNP6.0 breast cancer genome sequencing data

Affymetrix SNP6.0

344

EGAD00010000916

BASIS breast cancer DNA methylation Illumina 450k

Illumina 450k

457

EGAD00010000917

399 tumors profiled using Agilent miRNA microarrays (Product Number G4872A, design ID 046064). The arrays are based on miRBase release 19.0 and 2006 human miRNAs are represented. 150 ng total RNA was used as input.

Agilent miRNA microarrays

399

EGAD00010001911

Fresh frozen breast cancer H&E tissue images collected and annotated by the International Cancer Genome Consortium (ICGC), that included the BASIS collaboration. Associated with whole genome sequence data as originally described by Nik-Zainal et al, Nature, 2016 (DOI: 10.1038/nature17676) and deposited with ID EGAS00001001178

H and E image

151

Study

Study Description

Study Datasets 4 datasets.

Who archives the data?

Publications

Citations

The European Genome-phenome Archive (EGA) is part of the ELIXIR infrastructure.