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WES bam files associated with HNSCC patients in the LIONESS study

This dataset contains 85 WES bam/bai files of HNSCC cancer patients as part of with the LIONESS study

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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.

This policy outlines the terms and conditions associated with access the LIONESS dataset

1. The User Organisation agrees to only use the Data (i) for the duration and purpose of the Project; (ii) for Research Purposes; and (iii) in accordance with Research Ethics Board Approval, and any conditions or restrictions imposed pursuant to such Research Ethics Board Approval. The User Organisation 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 Organisation agrees that in handling this Data it will follow an up-to-date information technology (IT) policy that must include, at a minimum, the following items: a. Logging and auditing of access to the Data and to the computer network; b. Password protection to computer network and/or strong data encryption; c. Virus and malware protection to computers on the computer network; d. Secure backup procedure. 3. The User Organisation 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 or the provisions of section 2 above, the User Organisation agrees to use at least the measures set out in Appendix 1 to protect these Data. 4. COMPANY intends that any patient-level data to be disclosed to the User Organisation hereunder will be de-identified to the standard set forth at 45 CFR 164.514(b) such that it no longer constitutes protected health information (“PHI”) as such term is defined in the Privacy Rule promulgated under the Health Insurance Portability and Accountability Act of 1996, as amended. If the User Organisation becomes aware that it has received any patient-level data that has not been de-identified to this standard, the User Organisation shall notify DAC within twenty-four (24) hours of such discovery and shall follow COMPANY instructions to ensure proper return or destruction of such PHI. 5. In case of a breach of security resulting from ‘accidental’ use of Data by User Organisation or the Authorised Personnel, which leads to disclosure of Data, then User Organisation must report this to DAC within 72 hours maximum. 6. If requested, the User Organisation will allow data security and management documentation to be inspected to verify that it is complying with the terms of this agreement. 7. The User Organisation 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. 8. The User Organisation 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 Organisation or is freely available without restriction. 9. The User Organisation agrees only to transfer or disclose these Data, in whole or part, or any material derived from the Data, to the Authorised Personnel. Should the User Organisation wish to share these Data with an External Collaborator, the External Collaborator must complete a separate application for access to these Data. 10. The User Organisation 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 oral and written presentations, reports, disclosures and Publications resulting from all analyses of the Data. 11. The User Organisation 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. 12. The User Organisation 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 Organisation 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 ). 13. The User Organisation 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. 14. The User Organisation will notify the DAC within 30 days of any changes or departures of Authorised Personnel. 15. The User Organisation will notify the DAC prior to any significant changes to the protocol for the Project. 16. The User Organisation agrees to submit a final report at the completion of the Data Access Period, or if a study is closed, upon request by the DAC. 17. The User Organisation will notify the DAC as soon as it becomes aware of a breach of the terms or conditions of this agreement. 18. The User Organisation 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 User Organisation that may arise (whether directly or indirectly) in any way whatsoever from the User Organisation’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. 19. The User Organisation agrees to hold the Data Producers, and all other parties involved in the creation, funding or protection of these Data harmless and to defend and indemnify all these parties against all liabilities, demands, damages, expenses, and losses arising out of the User Organisation’s use of the Data. 20. COMPANY may terminate this agreement by written notice to the User Organisation. If this agreement terminates for any reason, the User Organisation will be required to destroy any Data held, including copies and backup copies. This clause does not prevent the User Organisation from retaining these data for archival purpose in conformity with audit or legal requirements. 20. The User Organisation 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 COMPANY. In the event that changes are required, the Data Producers or their appointed agent will contact the User Organisation to inform it of the changes and the User Organisation may elect to accept the changes or terminate the agreement. 21. The User Organisation agrees to distribute a copy of these terms to the Authorised Personnel. The User Organisation will procure that the Authorised Personnel comply with the terms of this agreement. 19. The User has to follow the General Data Protection Regulation (GDPR) as issued by the European Union (2016/679). If the User's institution is not part of the European Union, an appropriate Data Protection Policy has to be issued by the User, which will be checked by the legal and data privacy department of the LMU Klinikum Munich. 20. This agreement (and any dispute, controversy, proceedings or claim of whatever nature arising out of this agreement or its formation) shall be construed, interpreted and governed by the laws of Germany and shall be subject to the exclusive jurisdiction of the German courts.

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
EGAS50000001018 Exome Sequencing

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
EGAF50000378522 bam 18.2 GB
EGAF50000378523 bam 22.2 GB
EGAF50000378524 bam 20.6 GB
EGAF50000378525 bam 15.7 GB
EGAF50000378526 bam 18.0 GB
EGAF50000378527 bam 21.7 GB
EGAF50000378528 bai 5.5 MB
EGAF50000378529 bam 22.8 GB
EGAF50000378530 bam 23.0 GB
EGAF50000378531 bam 20.8 GB
EGAF50000378532 bam 25.8 GB
EGAF50000378533 bam 27.1 GB
EGAF50000378534 bam 27.6 GB
EGAF50000378535 bam 18.0 GB
EGAF50000378536 bai 4.4 MB
EGAF50000378537 bam 17.0 GB
EGAF50000378538 bam 20.8 GB
EGAF50000378539 bam 20.7 GB
EGAF50000378540 bam 19.5 GB
EGAF50000378541 bai 4.9 MB
EGAF50000378542 bam 19.3 GB
EGAF50000378543 bam 28.5 GB
EGAF50000378544 bam 30.9 GB
EGAF50000378545 bam 27.9 GB
EGAF50000378546 bai 4.3 MB
EGAF50000378547 bai 4.7 MB
EGAF50000378548 bai 5.4 MB
EGAF50000378549 bam 19.0 GB
EGAF50000378550 bam 25.1 GB
EGAF50000378551 bai 4.8 MB
EGAF50000378552 bai 4.4 MB
EGAF50000378553 bai 4.7 MB
EGAF50000378554 bai 5.0 MB
EGAF50000378555 bai 4.9 MB
EGAF50000378556 bam 24.9 GB
EGAF50000378557 bam 25.2 GB
EGAF50000378558 bai 4.8 MB
EGAF50000378559 bam 19.4 GB
EGAF50000378560 bam 22.5 GB
EGAF50000378561 bai 4.3 MB
EGAF50000378562 bam 28.7 GB
EGAF50000378563 bai 4.8 MB
EGAF50000378564 bam 30.1 GB
EGAF50000378565 bai 4.7 MB
EGAF50000378566 bai 4.9 MB
EGAF50000378567 bam 26.6 GB
EGAF50000378568 bai 4.5 MB
EGAF50000378569 bam 22.6 GB
EGAF50000378570 bam 22.9 GB
EGAF50000378571 bam 23.5 GB
EGAF50000378572 bam 21.5 GB
EGAF50000378573 bai 4.5 MB
EGAF50000378574 bai 5.0 MB
EGAF50000378575 bam 17.6 GB
EGAF50000378576 bai 5.3 MB
EGAF50000378577 bai 5.1 MB
EGAF50000378578 bam 20.1 GB
EGAF50000378579 bai 4.6 MB
EGAF50000378580 bai 5.0 MB
EGAF50000378581 bam 20.7 GB
EGAF50000378582 bai 4.8 MB
EGAF50000378583 bai 4.4 MB
EGAF50000378584 bam 20.0 GB
EGAF50000378585 bai 5.4 MB
EGAF50000378586 bai 5.4 MB
EGAF50000378587 bai 5.2 MB
EGAF50000378588 bam 21.6 GB
EGAF50000378589 bai 4.6 MB
EGAF50000378590 bam 32.6 GB
EGAF50000378591 bam 13.1 GB
EGAF50000378592 bam 17.3 GB
EGAF50000378593 bam 27.1 GB
EGAF50000378594 bai 5.1 MB
EGAF50000378595 bam 19.6 GB
EGAF50000378596 bai 4.7 MB
EGAF50000378597 bam 26.3 GB
EGAF50000378598 bai 5.3 MB
EGAF50000378599 bam 29.6 GB
EGAF50000378600 bai 4.6 MB
EGAF50000378601 bai 4.8 MB
EGAF50000378602 bam 19.1 GB
EGAF50000378603 bai 4.7 MB
EGAF50000378604 bai 4.9 MB
EGAF50000378605 bam 18.6 GB
EGAF50000378606 bam 24.9 GB
EGAF50000378607 bai 4.6 MB
EGAF50000378608 bam 26.3 GB
EGAF50000378609 bam 30.1 GB
EGAF50000378610 bai 4.5 MB
EGAF50000378611 bai 5.3 MB
EGAF50000378612 bai 4.7 MB
EGAF50000378613 bam 21.6 GB
EGAF50000378614 bai 4.4 MB
EGAF50000378615 bai 4.6 MB
EGAF50000378616 bai 4.9 MB
EGAF50000378617 bai 4.9 MB
EGAF50000378618 bam 13.8 GB
EGAF50000378619 bai 4.8 MB
EGAF50000378620 bam 20.0 GB
EGAF50000378621 bai 4.9 MB
EGAF50000378622 bam 13.2 GB
EGAF50000378623 bai 4.6 MB
EGAF50000378624 bam 16.7 GB
EGAF50000378625 bai 4.6 MB
EGAF50000378626 bai 5.4 MB
EGAF50000378627 bai 5.1 MB
EGAF50000378628 bam 15.7 GB
EGAF50000378629 bai 5.2 MB
EGAF50000378630 bam 22.0 GB
EGAF50000378631 bai 4.5 MB
EGAF50000378632 bam 19.3 GB
EGAF50000378633 bai 5.2 MB
EGAF50000378634 bai 5.0 MB
EGAF50000378635 bam 18.0 GB
EGAF50000378636 bai 5.5 MB
EGAF50000378637 bai 5.3 MB
EGAF50000378638 bam 20.0 GB
EGAF50000378639 bai 4.6 MB
EGAF50000378640 bai 4.9 MB
EGAF50000378641 bam 15.0 GB
EGAF50000378642 bam 18.8 GB
EGAF50000378643 bam 19.1 GB
EGAF50000378644 bai 4.9 MB
EGAF50000378645 bai 4.6 MB
EGAF50000378646 bai 4.9 MB
EGAF50000378647 bam 13.2 GB
EGAF50000378648 bai 5.0 MB
EGAF50000378649 bam 24.2 GB
EGAF50000378650 bai 5.4 MB
EGAF50000378651 bai 4.7 MB
EGAF50000378652 bai 4.8 MB
EGAF50000378653 bam 28.2 GB
EGAF50000378654 bai 5.0 MB
EGAF50000378655 bam 27.6 GB
EGAF50000378656 bai 4.6 MB
EGAF50000378657 bai 4.8 MB
EGAF50000378658 bam 25.3 GB
EGAF50000378659 bai 4.6 MB
EGAF50000378660 bai 4.5 MB
EGAF50000378661 bai 5.2 MB
EGAF50000378662 bam 23.3 GB
EGAF50000378663 bai 5.0 MB
EGAF50000378664 bai 4.9 MB
EGAF50000378665 bam 14.7 GB
EGAF50000378666 bai 4.8 MB
EGAF50000378667 bam 12.4 GB
EGAF50000378668 bai 4.8 MB
EGAF50000378669 bam 28.6 GB
EGAF50000378670 bai 4.6 MB
EGAF50000378671 bam 21.7 GB
EGAF50000378672 bai 5.3 MB
EGAF50000378673 bai 4.9 MB
EGAF50000378674 bai 4.4 MB
EGAF50000378675 bam 16.5 GB
EGAF50000378676 bam 19.7 GB
EGAF50000378677 bai 5.1 MB
EGAF50000378678 bam 28.3 GB
EGAF50000378679 bam 23.5 GB
EGAF50000378680 bai 4.5 MB
EGAF50000378681 bai 4.8 MB
EGAF50000378682 bam 30.0 GB
EGAF50000378683 bam 15.7 GB
EGAF50000378684 bam 16.4 GB
EGAF50000378685 bam 19.8 GB
164 Files (1.8 TB)