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Tumor sequencing dataset from 17 individuals with biallelic germline pathogenic variants in CHEK2

WES data of 17 tumors from 9 individuals that have biallelic germline CHEK2 pathogenic variants. Shallow whole genome sequencing files from 16 tumors samples from 9 individuals with germline biallleic pathogenic variants in CHEK2.

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Access to the dataset(s) is available by application to the Radboudumc Cancer Genomics DAC. Access to data will be granted to qualified investigators for appropriate use. For further information on data release policy and data access application form, please contact:

1. The User Institution agrees to only use these Data for the purpose of the Project (described in Appendix II) and only for Research Purposes. The User Institution further agrees that it will only use these Data for Research Purposes which are within the limitations (if any) set out in Appendix I. 2. The User Institution agrees to preserve, at all times, the confidentiality of these Data. In particular, it undertakes not to use, or attempt to use these Data to compromise or otherwise infringe the confidentiality of information on Research Participants. Without prejudice to the generality of the foregoing, the User Institution agrees to use at least the measures set out in Appendix I to protect these Data. 3. The User Institution agrees to protect the confidentiality of Research Participants in any research papers or publications that they prepare by taking all reasonable care to limit the possibility of identification. 4. The User Institution agrees not to link or combine these Data to other information or archived data available in a way that could re-identify the Research Participants, even if access to that data has been formally granted to the User Institution or is freely available without restriction. 5. The User Institution agrees only to transfer or disclose these Data, in whole or part, or any material derived from these Data, to the Authorised Personnel. Should the User Institution wish to share these Data with an External Collaborator, the External Collaborator must complete a separate application for access to these Data. 6. The User Institution agrees that the Data Producers, and all other parties involved in the creation, funding or protection of these Data: a) make no warranty or representation, express or implied as to the accuracy, quality or comprehensiveness of these Data; b) exclude to the fullest extent permitted by law all liability for actions, claims, proceedings, demands, losses (including but not limited to loss of profit), costs, awards damages and payments made by the Recipient that may arise (whether directly or indirectly) in any way whatsoever from the Recipient’s use of these Data or from the unavailability of, or break in access to, these Data for whatever reason and; c) bear no responsibility for the further analysis or interpretation of these Data. 7. The User Institution agrees to follow the Fort Lauderdale Guidelines (http://www.wellcome.ac.uk/stellent/groups/corporatesite/@policy_communications/documents/web_document/wtd003207.pdf ) and the Toronto Statement (http://www.nature.com/nature/journal/v461/n7261/full/461168a.html). This includes but is not limited to recognising the contribution of the Data Producers and including a proper acknowledgement in all reports or publications resulting from the use of these Data. 8. The User Institution agrees to follow the Publication Policy in Appendix III. This includes respecting the moratorium period for the Data Producers to publish the first peer-reviewed report describing and analysing these Data. 9. The User Institution agrees not to make intellectual property claims on these Data and not to use intellectual property protection in ways that would prevent or block access to, or use of, any element of these Data, or conclusion drawn directly from these Data. 10. The User Institution can elect to perform further research that would add intellectual and resource capital to these data and decide to obtain intellectual property rights on these downstream discoveries. In this case, the User Institution agrees to implement licensing policies that will not obstruct further research and to follow the U.S. National Institutes of Health Best Practices for the Licensing of Genomic Inventions (2005) (https://www.icgc.org/files/daco/NIH_BestPracticesLicensingGenomicInventions_2005_en.pdf ) in conformity with the Organisation for Economic Co-operation and Development Guidelines for the Licensing of the Genetic Inventions (2006) (http://www.oecd.org/science/biotech/36198812.pdf ). 11. The User Institution agrees to destroy/discard the Data held, once it is no longer used for the Project, unless obliged to retain the data for archival purposes in conformity with audit or legal requirements. 12. The User Institution will notify Radboudumc Cancer Genomics DAC within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify Radboudumc Cancer Genomics DAC prior to any significant changes to the protocol for the Project. 14. The User Institution will notify Radboudumc Cancer Genomics DAC as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. Radboudumc Cancer Genomics DAC may terminate this agreement by written notice to the User Institution. If this agreement terminates for any reason, the User Institution will be required to destroy any Data held, including copies and backup copies. This clause does not prevent the User Institution from retaining these data for archival purpose in conformity with audit or legal requirements. 16. The User Institution accepts that it may be necessary for the Data Producers to alter the terms of this agreement from time to time. As an example, this may include specific provisions relating to the Data required by Data Producers other than Radboudumc Cancer Genomics DAC. In the event that changes are required, the Data Producers or their appointed agent will contact the User Institution to inform it of the changes and the User Institution may elect to accept the changes or terminate the agreement. 17. If requested, the User Institution will allow data security and management documentation to be inspected to verify that it is complying with the terms of this agreement. 18. The User Institution agrees to distribute a copy of these terms to the Authorised Personnel. The User Institution will procure that the Authorised Personnel comply with the terms of this agreement.

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
EGAS50000000080 Cancer Genomics

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 Located in
EGAF50000057105 bam 11.2 GB
EGAF50000057106 bam 4.3 GB
EGAF50000057107 bam 15.6 GB
EGAF50000057108 bam 4.7 GB
EGAF50000057109 bam 5.5 GB
EGAF50000057110 bam 75.4 GB
EGAF50000057111 bam 12.0 GB
EGAF50000057112 bam 15.0 GB
EGAF50000057113 bam 4.8 GB
EGAF50000057114 bam 3.9 GB
EGAF50000057115 bam 5.7 GB
EGAF50000057116 bam 13.4 GB
EGAF50000057117 bam 13.1 GB
EGAF50000057118 bam 17.1 GB
EGAF50000057119 bam 14.3 GB
EGAF50000057120 bam 13.9 GB
EGAF50000057121 bam 5.0 GB
EGAF50000057122 bam 5.7 GB
EGAF50000057123 bam 3.4 GB
EGAF50000057124 bam 12.1 GB
EGAF50000057125 bam 12.2 GB
EGAF50000057126 bam 16.1 GB
EGAF50000057127 bam 15.2 GB
EGAF50000057128 bam 12.8 GB
EGAF50000057129 bam 4.7 GB
EGAF50000057130 bam 19.4 GB
EGAF50000057131 bam 17.8 GB
EGAF50000057132 bam 5.9 GB
EGAF50000057133 bam 4.3 GB
EGAF50000057134 bam 4.6 GB
EGAF50000057135 bam 5.2 GB
EGAF50000057136 bam 4.3 GB
EGAF50000057137 bam 5.2 GB
33 Files (383.6 GB)