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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Cancer initiation organoids BAM files

This dataset contains whole-genome sequencing data files from colon organoid cultures, which were mutated using CRISPR-Cas9 for specific genes (APC, KRAS, TP53 and SMAD4) to generate in vitro transformed cancer cells. After introducing each mutation, the resulting cultures were subjected to whole-genome sequencing. In addition, some cultures were xenotransplanted in recipient mice. The resulting primary tumors and corresponding metastases were subjected to whole-genome sequencing.

Request Access

DUO:0000018
version: 2021-02-23

not for profit, non commercial use only

This data use modifier indicates that use of the data is limited to not-for-profit organizations and not-for-profit use, non-commercial use.

DUO:0000042
version: 2021-02-23

general research use

This data use permission indicates that use is allowed for general research use for any research purpose.

Data access policy Department of Biomedical Genetics of UMC Utrecht

The Data Access Committee of the Department of Biomedical Genetics of UMC Utrecht (DAC-DGB-UMCU) governs data access to genomic datasets and accompanying metadata via a two-step access request procedure. Access to data will only be granted to qualified users for appropriate use. Step 1: contact the DAC-DBG-UMCU at DACDBG@umcutrecht.nl, providing a brief summary of your research proposal and the requested datasets. Your proposal will be reviewed based on the necessity of the requested dataset to answer the specific research question. Step 2: The DAC will request additional documentation to complete your application. The DAC-DBG-UMCU will decide if data access is permitted by evaluating the feasibility of the project, the scientific profile of the applicant(s), and whether the relevant ethical approvals justify the proposed research. Only unanimous voting results in acceptation of the request.

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
EGAS00001001969 Other

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
EGAF00001323737 bam 123.9 GB Report
EGAF00001323738 bam 67.1 GB Report
EGAF00001323741 bam 67.2 GB Report
EGAF00001323743 bam 68.6 GB Report
EGAF00001323744 bam 64.6 GB Report
EGAF00001323745 bam 97.6 GB Report
EGAF00001323746 bam 63.8 GB Report
EGAF00001323748 bam 65.8 GB Report
EGAF00001323749 bam 67.9 GB Report
EGAF00001323750 bam 63.4 GB Report
EGAF00001323751 bam 85.9 GB Report
EGAF00001329910 bam 57.0 GB Report
EGAF00001329911 bam 53.8 GB Report
EGAF00001329913 bam 55.8 GB Report
EGAF00001329918 bam 63.7 GB Report
EGAF00001747645 bam 59.7 GB Report
EGAF00001747646 bam 63.8 GB Report
EGAF00001747647 bam 63.3 GB Report
EGAF00001747648 bam 63.4 GB Report
EGAF00001747649 bam 55.7 GB Report
EGAF00001747650 bam 59.1 GB Report
EGAF00002320063 bam 81.2 GB Report
EGAF00002320064 bam 62.2 GB Report
EGAF00002320065 bam 92.0 GB Report
EGAF00002320066 bam 79.8 GB Report
EGAF00002320067 bam 79.2 GB Report
EGAF00002320068 bam 70.7 GB Report
EGAF00002320069 bam 73.8 GB Report
EGAF00002320070 bam 66.0 GB Report
EGAF00002320071 bam 74.0 GB Report
EGAF00002320072 bam 72.5 GB Report
EGAF00002320073 bam 66.6 GB Report
EGAF00002320428 bam 67.0 GB Report
33 Files (2.3 TB)