About file location

As the EGA is co-managed by the EMBL-EBI and CRG, files could be located in the UK and/or Spain, as indicated by their respective flags.

Alternatively, files could be located in one of the international Federated EGA nodes, as indicated next to the node's flag.
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DEPArray-based sorting of pure carcinoma and stromal populations from formalin-fixed paraffin-embedded (FFPE) tissues followed by targeted sequencing

To overcome the challenges of low DNA yields, degraded DNA by formalin fixation and diluted signal of genomic aberrations by non-carcinoma components in the heterogeneous FFPE samples, we isolated pure carcinoma and stromal cells using the DEPArray™ NxT system, a microchip-based digital sorter that allows isolation of pure, homogeneous subpopulations of cells from FFPE samples. We isolated pure carcinoma and stromal cell populations from 12 FFPE tissues, including tissues from 9 primary and metastatic breast cancer and 3 primary ovarian high-grade serous carcinomas. This was followed by a targeted panel for somatic mutation and sCNA analysis (7 samples), subject to cell availability. Mutation analysis was performed successfully in 6/7 samples and somatic mutations were detected in all of them.

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general research use

general research use

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS50000001327 Resequencing

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Quality Report
Located in
i
EGAF50000452258 fastq.gz 42.9 MB
EGAF50000452259 fastq.gz 48.6 MB
EGAF50000452260 fastq.gz 96.3 MB
EGAF50000452261 fastq.gz 100.8 MB
EGAF50000452262 fastq.gz 40.1 MB
EGAF50000452263 fastq.gz 48.0 MB
EGAF50000452264 fastq.gz 37.1 MB
EGAF50000452265 fastq.gz 43.8 MB
EGAF50000452266 fastq.gz 66.8 MB
EGAF50000452267 fastq.gz 75.0 MB
EGAF50000452268 fastq.gz 30.7 MB
EGAF50000452269 fastq.gz 36.4 MB
EGAF50000452270 fastq.gz 30.8 MB
EGAF50000452271 fastq.gz 36.3 MB
EGAF50000452272 fastq.gz 77.4 MB
EGAF50000452273 fastq.gz 86.4 MB
EGAF50000452274 fastq.gz 141.7 MB
EGAF50000452275 fastq.gz 157.2 MB
EGAF50000452276 fastq.gz 155.1 MB
EGAF50000452277 fastq.gz 165.9 MB
EGAF50000452278 fastq.gz 163.0 MB
EGAF50000452279 fastq.gz 176.2 MB
EGAF50000452280 fastq.gz 115.7 MB
EGAF50000452281 fastq.gz 120.2 MB
24 Files (2.1 GB)