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WES raw data for study "Molecular and functional profiling of plasmablastic lymphoma"

1 cell line and 123 patient samples including 38 normal (22 paired normal and 16 unpaired), 85 tumor-initial, FASTQ file types, Agilent SureSelect Human All Exon V6 Kit

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Data access policy for data in the study "Molecular and functional profiling of plasmablastic lymphoma"

DATA ACCESS AGREEMENT These terms and conditions govern access to the managed access datasets (details of which are set out in Appendix I) to which the User Institution has requested access. The User Institution agrees to be bound by these terms and conditions. Definitions Authorised Personnel: The individuals at the User Institution to whom MedA UKM grants access to the Data. This includes the User, the individuals listed in Appendix II and any other individuals for whom the User Institution subsequently requests access to the Data. Details of the initial Authorised Personnel are set out in Appendix II. Data: The managed access datasets to which the User Institution has requested access. Data Producers: MedA UKM and the collaborators listed in Appendix I responsible for the development, organisation, and oversight of these Data. External Collaborator: A collaborator of the User, working for an institution other than the User Institution. Project: The project for which the User Institution has requested access to these Data. A description of the Project is set out in Appendix II. Publications: Includes, without limitation, articles published in print journals, electronic journals, reviews, books, posters and other written and verbal presentations of research. Research Participant: An individual whose data form part of these Data. Research Purposes: Shall mean research that is seeking to advance the understanding of genetics and genomics, including the treatment of disorders, and work on statistical methods that may be applied to such research. User: The principal investigator for the Project. User Institution(s): The Institution that has requested access to the Data. MedA UKM: Medizinische Klinik A, Universitätsklinikum Münster, Albert-Schweitzer-Campus 1, Gebäude A1, 48149 Münster 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. 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 MedA UKM within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify MedA UKM prior to any significant changes to the protocol for the Project. 14. The User Institution will notify MedA UKM as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. MedA UKM 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 MedA UKM. 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. 19. 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. Agreed for User Institution Signature:   Name:   Title:   Date:   Principal Investigator I confirm that I have read and understood this Agreement. Signature:   Name:   Title:   Date:   Agreed for MedA UKM Signature:   Name:   Title:   Date:   APPENDIX I – DATASET DETAILS APPENDIX II ––PROJECT DETAILS APPENDIX III –– PUBLICATION POLICY APPENDIX I – DATASET DETAILS (to be completed by the data producer before passing to applicant) * Dataset reference (EGA Study ID and Dataset Details): * Name of project that created the dataset: * Names of other data producers/collaborators: * Specific limitations on areas of research: * Minimum protection measures required: File access: Data can be held in unencrypted files on an institutional compute system, with Unix user group read/write access for one or more appropriate groups but not Unix world read/write access behind a secure firewall. Laptops holding these data should have password protected logins and screenlocks (set to lock after 5 min of inactivity). If held on USB keys or other portable hard drives, the data must be encrypted. APPENDIX II – PROJECT DETAILS (to be completed by the Requestor) Details of dataset requested i.e., EGA Study and Dataset Accession Number Brief abstract of the Project in which the Data will be used (500 words max) All Individuals who the User Institution to be named as registered users | Name of Registered User | Email | Job Title | Supervisor* | All Individuals that should have an account created at the EGA | Name of Registered User | Email | Job Title | APPENDIX III – PUBLICATION POLICY In any publications based on these data, please describe how the data can be accessed, including the name of the hosting database (e.g., The European Genome-phenome Archive at the European Bioinformatics Institute) and its accession numbers, and acknowledge its use in a form agreed by the User Institution with MedA UKM.

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
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 Located in
EGAF00004675451 fq.gz 6.6 GB
EGAF00004675452 fq.gz 6.7 GB
EGAF00004675453 fq.gz 1.9 GB
EGAF00004675454 fq.gz 1.9 GB
EGAF00004675455 fq.gz 2.2 GB
EGAF00004675456 fq.gz 2.3 GB
EGAF00004675457 fq.gz 2.9 GB
EGAF00004675458 fq.gz 3.0 GB
EGAF00004675459 fq.gz 2.4 GB
EGAF00004675460 fq.gz 2.5 GB
EGAF00004675461 fq.gz 4.5 GB
EGAF00004675462 fq.gz 4.6 GB
EGAF00004675463 fq.gz 2.6 GB
EGAF00004675464 fq.gz 2.7 GB
EGAF00004675465 fq.gz 3.0 GB
EGAF00004675466 fq.gz 3.1 GB
EGAF00004675467 fq.gz 3.1 GB
EGAF00004675468 fq.gz 3.1 GB
EGAF00004675469 fq.gz 3.5 GB
EGAF00004675470 fq.gz 3.7 GB
EGAF00004675471 fq.gz 3.1 GB
EGAF00004675472 fq.gz 3.2 GB
EGAF00004675475 fq.gz 4.6 GB
EGAF00004675476 fq.gz 4.8 GB
EGAF00004675477 fq.gz 5.6 GB
EGAF00004675478 fq.gz 6.0 GB
EGAF00004675479 fq.gz 3.3 GB
EGAF00004675480 fq.gz 3.4 GB
EGAF00004675481 fq.gz 5.3 GB
EGAF00004675482 fq.gz 5.5 GB
EGAF00004675483 fq.gz 2.9 GB
EGAF00004675484 fq.gz 3.0 GB
EGAF00004675485 fq.gz 3.3 GB
EGAF00004675486 fq.gz 3.4 GB
EGAF00004675487 fq.gz 1.8 GB
EGAF00004675488 fq.gz 1.8 GB
EGAF00004675489 fq.gz 3.0 GB
EGAF00004675490 fq.gz 3.1 GB
EGAF00004675491 fq.gz 10.3 GB
EGAF00004675492 fq.gz 11.1 GB
EGAF00004675493 fq.gz 2.1 GB
EGAF00004675494 fq.gz 2.2 GB
EGAF00004675495 fq.gz 2.9 GB
EGAF00004675496 fq.gz 2.9 GB
EGAF00004675497 fq.gz 4.3 GB
EGAF00004675498 fq.gz 4.5 GB
EGAF00004675499 fq.gz 5.4 GB
EGAF00004675500 fq.gz 5.6 GB
EGAF00004675501 fq.gz 4.1 GB
EGAF00004675502 fq.gz 4.2 GB
EGAF00004675503 fq.gz 3.2 GB
EGAF00004675504 fq.gz 3.4 GB
EGAF00004675505 fq.gz 6.9 GB
EGAF00004675506 fq.gz 7.1 GB
EGAF00004675509 fq.gz 2.1 GB
EGAF00004675510 fq.gz 2.2 GB
EGAF00004675511 fq.gz 2.0 GB
EGAF00004675512 fq.gz 2.1 GB
EGAF00004675513 fq.gz 3.2 GB
EGAF00004675514 fq.gz 3.3 GB
EGAF00004675515 fq.gz 5.4 GB
EGAF00004675516 fq.gz 5.4 GB
EGAF00004675517 fq.gz 2.8 GB
EGAF00004675518 fq.gz 2.9 GB
EGAF00004675519 fq.gz 2.1 GB
EGAF00004675520 fq.gz 2.2 GB
EGAF00004675521 fq.gz 4.0 GB
EGAF00004675522 fq.gz 4.1 GB
EGAF00004675523 fq.gz 3.5 GB
EGAF00004675524 fq.gz 3.7 GB
EGAF00004675525 fq.gz 3.3 GB
EGAF00004675526 fq.gz 3.4 GB
EGAF00004675527 fq.gz 3.9 GB
EGAF00004675528 fq.gz 4.1 GB
EGAF00004675529 fq.gz 3.7 GB
EGAF00004675530 fq.gz 3.8 GB
EGAF00004675531 fq.gz 4.8 GB
EGAF00004675532 fq.gz 4.9 GB
EGAF00004675533 fq.gz 3.0 GB
EGAF00004675534 fq.gz 3.1 GB
EGAF00004675535 fq.gz 5.0 GB
EGAF00004675536 fq.gz 5.2 GB
EGAF00004675537 fq.gz 2.6 GB
EGAF00004675538 fq.gz 2.7 GB
EGAF00004675539 fq.gz 5.3 GB
EGAF00004675540 fq.gz 5.5 GB
EGAF00004675541 fq.gz 4.0 GB
EGAF00004675542 fq.gz 3.9 GB
EGAF00004675543 fq.gz 1.3 GB
EGAF00004675544 fq.gz 1.3 GB
EGAF00004675545 fq.gz 2.7 GB
EGAF00004675546 fq.gz 2.8 GB
EGAF00004675547 fq.gz 3.1 GB
EGAF00004675548 fq.gz 3.2 GB
EGAF00004675549 fq.gz 3.6 GB
EGAF00004675550 fq.gz 3.7 GB
EGAF00004675551 fq.gz 3.9 GB
EGAF00004675552 fq.gz 4.0 GB
EGAF00004675553 fq.gz 2.2 GB
EGAF00004675554 fq.gz 2.2 GB
EGAF00004675555 fq.gz 3.5 GB
EGAF00004675556 fq.gz 3.6 GB
EGAF00004675557 fq.gz 3.5 GB
EGAF00004675558 fq.gz 3.8 GB
EGAF00004675559 fq.gz 3.9 GB
EGAF00004675560 fq.gz 4.1 GB
EGAF00004675561 fq.gz 4.7 GB
EGAF00004675562 fq.gz 5.0 GB
EGAF00004675563 fq.gz 2.9 GB
EGAF00004675564 fq.gz 3.1 GB
EGAF00004675565 fq.gz 3.1 GB
EGAF00004675566 fq.gz 3.2 GB
EGAF00004675567 fq.gz 3.9 GB
EGAF00004675568 fq.gz 4.1 GB
EGAF00004675569 fq.gz 3.0 GB
EGAF00004675570 fq.gz 3.1 GB
EGAF00004675571 fq.gz 3.3 GB
EGAF00004675572 fq.gz 3.4 GB
EGAF00004675573 fq.gz 2.2 GB
EGAF00004675574 fq.gz 2.3 GB
EGAF00004675575 fq.gz 3.5 GB
EGAF00004675576 fq.gz 3.6 GB
EGAF00004675577 fq.gz 2.9 GB
EGAF00004675578 fq.gz 2.9 GB
EGAF00004675579 fq.gz 3.2 GB
EGAF00004675580 fq.gz 3.3 GB
EGAF00004675581 fq.gz 1.3 GB
EGAF00004675582 fq.gz 1.4 GB
EGAF00004675583 fq.gz 3.5 GB
EGAF00004675584 fq.gz 3.6 GB
EGAF00004675585 fq.gz 3.3 GB
EGAF00004675586 fq.gz 3.4 GB
EGAF00004675587 fq.gz 3.5 GB
EGAF00004675588 fq.gz 3.8 GB
EGAF00004675589 fq.gz 3.0 GB
EGAF00004675590 fq.gz 3.0 GB
EGAF00004675591 fq.gz 3.3 GB
EGAF00004675592 fq.gz 3.6 GB
EGAF00004675593 fq.gz 6.3 GB
EGAF00004675594 fq.gz 6.4 GB
EGAF00004675595 fq.gz 2.6 GB
EGAF00004675596 fq.gz 2.6 GB
EGAF00004675597 fq.gz 3.3 GB
EGAF00004675598 fq.gz 3.5 GB
EGAF00004675599 fq.gz 1.3 GB
EGAF00004675600 fq.gz 1.3 GB
EGAF00004675601 fq.gz 3.0 GB
EGAF00004675602 fq.gz 3.1 GB
EGAF00004675603 fq.gz 4.8 GB
EGAF00004675604 fq.gz 5.0 GB
EGAF00004675605 fq.gz 1.6 GB
EGAF00004675606 fq.gz 1.7 GB
EGAF00004675607 fq.gz 3.4 GB
EGAF00004675608 fq.gz 3.5 GB
EGAF00004675609 fq.gz 3.2 GB
EGAF00004675610 fq.gz 3.3 GB
EGAF00004675611 fq.gz 989.5 MB
EGAF00004675612 fq.gz 1.0 GB
EGAF00004675613 fq.gz 3.4 GB
EGAF00004675614 fq.gz 3.6 GB
EGAF00004675615 fq.gz 2.3 GB
EGAF00004675616 fq.gz 2.7 GB
EGAF00004675617 fq.gz 5.5 GB
EGAF00004675618 fq.gz 5.6 GB
EGAF00004675619 fq.gz 3.1 GB
EGAF00004675620 fq.gz 3.2 GB
EGAF00004675621 fq.gz 3.1 GB
EGAF00004675622 fq.gz 3.2 GB
EGAF00004675623 fq.gz 6.3 GB
EGAF00004675624 fq.gz 6.4 GB
EGAF00004675625 fq.gz 1.6 GB
EGAF00004675626 fq.gz 1.6 GB
EGAF00004675627 fq.gz 1.9 GB
EGAF00004675628 fq.gz 2.0 GB
EGAF00004675629 fq.gz 4.0 GB
EGAF00004675630 fq.gz 4.2 GB
EGAF00004675631 fq.gz 1.7 GB
EGAF00004675632 fq.gz 1.8 GB
EGAF00004675633 fq.gz 4.3 GB
EGAF00004675634 fq.gz 4.4 GB
EGAF00004675635 fq.gz 2.0 GB
EGAF00004675636 fq.gz 2.0 GB
EGAF00004675637 fq.gz 4.3 GB
EGAF00004675638 fq.gz 4.3 GB
EGAF00004675639 fq.gz 3.2 GB
EGAF00004675640 fq.gz 3.2 GB
EGAF00004675641 fq.gz 3.4 GB
EGAF00004675642 fq.gz 3.5 GB
EGAF00004675643 fq.gz 3.3 GB
EGAF00004675644 fq.gz 3.5 GB
EGAF00004675645 fq.gz 1.4 GB
EGAF00004675646 fq.gz 1.5 GB
EGAF00004675647 fq.gz 1.8 GB
EGAF00004675648 fq.gz 1.9 GB
EGAF00004675649 fq.gz 3.4 GB
EGAF00004675650 fq.gz 3.6 GB
EGAF00004675651 fq.gz 1.7 GB
EGAF00004675652 fq.gz 1.7 GB
EGAF00004675653 fq.gz 3.6 GB
EGAF00004675654 fq.gz 3.8 GB
EGAF00004675655 fq.gz 7.2 GB
EGAF00004675656 fq.gz 7.5 GB
EGAF00004675657 fq.gz 3.8 GB
EGAF00004675658 fq.gz 3.9 GB
EGAF00004675659 fq.gz 7.3 GB
EGAF00004675660 fq.gz 7.7 GB
EGAF00004675661 fq.gz 3.5 GB
EGAF00004675662 fq.gz 3.6 GB
EGAF00004675663 fq.gz 3.4 GB
EGAF00004675664 fq.gz 3.4 GB
EGAF00004675665 fq.gz 3.1 GB
EGAF00004675666 fq.gz 3.3 GB
EGAF00004675667 fq.gz 3.6 GB
EGAF00004675668 fq.gz 3.8 GB
EGAF00004675669 fq.gz 740.3 MB
EGAF00004675670 fq.gz 754.4 MB
EGAF00004675671 fq.gz 5.6 GB
EGAF00004675672 fq.gz 5.7 GB
EGAF00004675673 fq.gz 1.6 GB
EGAF00004675674 fq.gz 1.7 GB
EGAF00004675675 fq.gz 4.9 GB
EGAF00004675676 fq.gz 5.0 GB
EGAF00004675677 fq.gz 3.8 GB
EGAF00004675678 fq.gz 3.8 GB
EGAF00004675679 fq.gz 2.8 GB
EGAF00004675680 fq.gz 2.9 GB
EGAF00004675681 fq.gz 1.5 GB
EGAF00004675682 fq.gz 1.6 GB
EGAF00004675683 fq.gz 7.5 GB
EGAF00004675684 fq.gz 7.9 GB
EGAF00004675685 fq.gz 2.5 GB
EGAF00004675686 fq.gz 2.8 GB
EGAF00004675687 fq.gz 4.2 GB
EGAF00004675688 fq.gz 4.3 GB
EGAF00004675689 fq.gz 2.9 GB
EGAF00004675690 fq.gz 3.1 GB
EGAF00004675691 fq.gz 5.7 GB
EGAF00004675692 fq.gz 5.8 GB
EGAF00004675693 fq.gz 3.4 GB
EGAF00004675694 fq.gz 3.6 GB
EGAF00004675695 fq.gz 2.9 GB
EGAF00004675696 fq.gz 3.0 GB
EGAF00004675697 fq.gz 3.4 GB
EGAF00004675698 fq.gz 3.5 GB
EGAF00004675701 fq.gz 9.2 GB
EGAF00004675702 fq.gz 9.6 GB
EGAF00004675703 fq.gz 1.5 GB
EGAF00004675704 fq.gz 1.7 GB
248 Files (887.3 GB)