Study

Breast_Cancer_Somatic_Genetics_Study_

Study ID Alternative Stable ID Type
EGAS00001000195 Cancer Genomics

Study Description

We propose to definitively characterise the somatic genetics of ER+ve, HER2-ve breast cancer through generation of comprehensive catalogues of somatic mutations in 500 cases by high coverage genome sequencing coupled with integrated transcriptomic and methylation analyses.

Study Datasets 13 datasets.

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID Description Technology Samples
EGAD00001000138
The expression data for this study can be found here: http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1088/and its SNP6 data can be found here:http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1087/
Illumina Genome Analyzer II,Illumina HiSeq 2000 58
EGAD00001000898
Cancers are ecosystems of genetically related clones, competing across space and time for limited resources. To understand the clonal structure of primary breast cancer, we applied genome and targeted sequencing to 295 samples from 49 patients’ tumors. The extent of subclonal diversification varied considerably among patients and encompassed many spatial patterns, including local growth, intraductal dissemination and clonal intermixture. Landmarks of disease progression, such as acquiring ... (Show More)
Illumina HiSeq 2000 42
EGAD00001001322
A comprehensive characterisation and analysis of human breast cancers through whole-genome sequencing.
Illumina HiSeq 2000 196
EGAD00001001323
A comprehensive characterisation and analysis of human breast cancers through genome-wide approaches through transcriptomics.
Illumina HiSeq 2000 59
EGAD00001001337
We propose to definitively characterise the somatic genetics of breast cancer through generation of comprehensive catalogues of somatic mutations in breast cancer cases by high coverage genome sequencing coupled with integrated transcriptomic and methylation analyses.
Illumina HiSeq 2000,Illumina HiSeq 2500,Illumina MiSeq 607
EGAD00001001338
We propose to definitively characterise the somatic genetics of breast cancer through generation of comprehensive catalogues of somatic mutations in breast cancer cases by high coverage genome sequencing coupled with integrated transcriptomic and methylation analyses.
Illumina Genome Analyzer II,Illumina HiSeq 2000 49
EGAD00001001350
Frequent somatic transfer of mitochondrial DNA into the nuclear genome of human cancer cells
Illumina HiSeq 2000 8
EGAD00001002237
The disordered transcriptomes of cancer encompass direct effects of somatic mutation on transcription; co-ordinated secondary alterations in transcriptional pathways; and increased transcriptional noise. To catalogue the rules governing how somatic mutation Overall, 59% of 6980 exonic substitutions were expressed. Compared to other classes, nonsense mutations showed lower expression levels than expected with patterns characteristic of nonsense-mediated decay. 14% of 4234 genomic ... (Show More)
Illumina Genome Analyzer II,Illumina HiSeq 2000 59
EGAD00001002696
Recurrent breast cancer is almost universally fatal. We characterize 170 patients locally relapsed or distant metastatic cancers using massively parallel sequencing. We identify that the relapse-seeding clone disseminates late from the primary tumor. TP53 and AKT1 appear to be enriched in ER-positive cancers predisposed to relapse. Mutation acquisition continues at relapse as the same mutation signatures continue to operate and new signatures, such as that caused by radiotherapy appear de novo. ... (Show More)
HiSeq X Ten,Illumina HiSeq 2000 58
EGAD00001002740
We propose to definitively characterise the somatic genetics of breast cancer through generation of comprehensive catalogues of somatic mutations in breast cancer cases by high coverage genome sequencing.
Illumina HiSeq 2000,Illumina HiSeq 2500,Illumina MiSeq 164
EGAD00010000915
Affymetrix SNP6.0 breast cancer genome sequencing data
Affymetrix SNP6.0 344
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
EGAD00010001079
Affymetrix SNP6.0 array breast cancer data
Affymetrix SNP6.0 66

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