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Hereditary Cancer Diagnostics with I2HCP gene panel

Germline blood DNA sequencing data generated in routine diagnostics of hereditary cancer using the I2HCP gene panel (~135 genes). There are 130 samples sequenced in a MiSeq machine and 108 sequenced in a HiSeq machine. There is a partial overlap between those two sets, meaning that some samples were sequenced in both machines. There is a strong enrichment in samples with copy-number variants (CNV), both single- and multi-exon, since this dataset was compiled for a benchmarking effort of CNV calling tools for genetic diagnostics.

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Data Access Agreement for the I2HCP diagnostics data

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 the Hereditary Cancer Program, Catalan Institute of Oncology 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: Hereditary Cancer Program, Catalan Institute of Oncology 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.   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. 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 acknowledge in any work based in whole or part on the Data, the published paper from which the Data derives as well as the Data Producers. Furthermore, 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 the Data Access Committee within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify the Data Access Committee prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the data access committee as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. The Data Access Committee 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. 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. The User Institution accepts that the Data is protected by and subject to international laws, including but not limited to the UK Data Protection Act 1998, and that they are responsible for ensuring compliance with any such applicable law. The Data Access Committee reserves the right to request and inspect data security and management documentation to ensure the adequacy of data protection measures in countries that have no national laws comparable to that which pertain in the European Economic Area (EEA). 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 complies 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 Spain and shall be subject to the exclusive jurisdiction of the Spanish 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
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
EGAF00003490920 bam 652.1 MB
EGAF00003492497 bam 1.5 GB
EGAF00003492498 bam 439.8 MB
EGAF00003492499 bam 372.2 MB
EGAF00003492500 bam 491.7 MB
EGAF00003492501 bam 444.8 MB
EGAF00003492502 bam 450.8 MB
EGAF00003492503 bam 309.5 MB
EGAF00003492504 bam 502.3 MB
EGAF00003492505 bam 647.9 MB
EGAF00003492506 bam 528.3 MB
EGAF00003492507 bam 418.9 MB
EGAF00003492508 bam 426.0 MB
EGAF00003492509 bam 727.4 MB
EGAF00003492510 bam 351.7 MB
EGAF00003492511 bam 604.2 MB
EGAF00003492512 bam 424.2 MB
EGAF00003492513 bam 545.4 MB
EGAF00003492514 bam 572.9 MB
EGAF00003492515 bam 520.0 MB
EGAF00003492516 bam 852.9 MB
EGAF00003492517 bam 463.3 MB
EGAF00003492518 bam 781.2 MB
EGAF00003492519 bam 543.1 MB
EGAF00003492520 bam 751.9 MB
EGAF00003492521 bam 539.8 MB
EGAF00003492522 bam 860.9 MB
EGAF00003492523 bam 1.4 GB
EGAF00003492524 bam 452.2 MB
EGAF00003492525 bam 373.9 MB
EGAF00003492526 bam 622.7 MB
EGAF00003492527 bam 474.5 MB
EGAF00003492528 bam 788.1 MB
EGAF00003492529 bam 468.4 MB
EGAF00003492530 bam 964.8 MB
EGAF00003492531 bam 431.4 MB
EGAF00003492532 bam 752.2 MB
EGAF00003492533 bam 452.9 MB
EGAF00003492534 bam 611.5 MB
EGAF00003492535 bam 964.3 MB
EGAF00003492536 bam 646.7 MB
EGAF00003492537 bam 536.7 MB
EGAF00003492538 bam 530.0 MB
EGAF00003492539 bam 487.7 MB
EGAF00003492540 bam 472.5 MB
EGAF00003492541 bam 707.9 MB
EGAF00003492542 bam 446.7 MB
EGAF00003492543 bam 431.9 MB
EGAF00003492544 bam 509.8 MB
EGAF00003492545 bam 395.3 MB
EGAF00003492546 bam 418.9 MB
EGAF00003492547 bam 592.4 MB
EGAF00003492548 bam 777.4 MB
EGAF00003492549 bam 291.3 MB
EGAF00003492550 bam 390.1 MB
EGAF00003492551 bam 740.1 MB
EGAF00003492552 bam 751.2 MB
EGAF00003492553 bam 440.1 MB
EGAF00003492554 bam 816.3 MB
EGAF00003492555 bam 455.7 MB
EGAF00003492556 bam 408.7 MB
EGAF00003492557 bam 357.1 MB
EGAF00003492558 bam 648.0 MB
EGAF00003492559 bam 383.7 MB
EGAF00003492560 bam 356.5 MB
EGAF00003492561 bam 451.8 MB
EGAF00003492562 bam 490.5 MB
EGAF00003492563 bam 383.5 MB
EGAF00003492564 bam 523.2 MB
EGAF00003492565 bam 932.9 MB
EGAF00003492566 bam 465.3 MB
EGAF00003492567 bam 381.8 MB
EGAF00003492568 bam 475.9 MB
EGAF00003492569 bam 346.5 MB
EGAF00003492570 bam 523.2 MB
EGAF00003492571 bam 926.9 MB
EGAF00003492572 bam 619.9 MB
EGAF00003492573 bam 548.3 MB
EGAF00003492574 bam 418.5 MB
EGAF00003492575 bam 431.1 MB
EGAF00003492576 bam 472.3 MB
EGAF00003492577 bam 595.9 MB
EGAF00003492578 bam 257.4 MB
EGAF00003492579 bam 452.2 MB
EGAF00003492580 bam 865.3 MB
EGAF00003492581 bam 542.8 MB
EGAF00003492582 bam 556.4 MB
EGAF00003492583 bam 495.6 MB
EGAF00003492584 bam 544.7 MB
EGAF00003492585 bam 717.4 MB
EGAF00003492586 bam 575.8 MB
EGAF00003492587 bam 651.0 MB
EGAF00003492588 bam 2.8 GB
EGAF00003492589 bam 649.6 MB
EGAF00003492590 bam 559.1 MB
EGAF00003492591 bam 988.2 MB
EGAF00003492592 bam 750.8 MB
EGAF00003492593 bam 909.0 MB
EGAF00003492594 bam 524.5 MB
EGAF00003492595 bam 737.9 MB
EGAF00003492596 bam 1.2 GB
EGAF00003492597 bam 420.8 MB
EGAF00003492598 bam 494.5 MB
EGAF00003492599 bam 481.6 MB
EGAF00003492600 bam 731.9 MB
EGAF00003492601 bam 607.4 MB
EGAF00003492602 bam 400.7 MB
EGAF00003492603 bam 170.0 MB
EGAF00003492604 bam 432.3 MB
EGAF00003492605 bam 430.3 MB
EGAF00003492606 bam 393.4 MB
EGAF00003492607 bam 555.6 MB
EGAF00003492608 bam 679.9 MB
EGAF00003492609 bam 396.4 MB
EGAF00003492610 bam 700.4 MB
EGAF00003492611 bam 689.1 MB
EGAF00003492612 bam 488.4 MB
EGAF00003620722 bam 551.0 MB
EGAF00003620723 bam 438.1 MB
EGAF00003620724 bam 1.2 GB
EGAF00003620725 bam 1.0 GB
EGAF00003620726 bam 791.5 MB
EGAF00003620727 bam 1.2 GB
EGAF00003620728 bam 514.7 MB
EGAF00003620729 bam 794.9 MB
EGAF00003620730 bam 394.7 MB
EGAF00003620731 bam 753.9 MB
EGAF00003620732 bam 752.7 MB
EGAF00003620733 bam 913.7 MB
EGAF00003620734 bam 686.2 MB
EGAF00003620735 bam 1.1 GB
EGAF00003620736 bam 1.1 GB
EGAF00003620737 bam 1.0 GB
EGAF00003620738 bam 900.1 MB
EGAF00003620739 bam 1.3 GB
EGAF00003620740 bam 759.3 MB
EGAF00003620741 bam 610.7 MB
EGAF00003620742 bam 800.7 MB
EGAF00003620743 bam 911.0 MB
EGAF00003620744 bam 860.7 MB
EGAF00003620745 bam 1.6 GB
EGAF00003620746 bam 810.8 MB
EGAF00003620747 bam 440.7 MB
EGAF00003620748 bam 809.1 MB
EGAF00003620749 bam 446.5 MB
EGAF00003620750 bam 955.5 MB
EGAF00003620751 bam 543.2 MB
EGAF00003620752 bam 787.7 MB
EGAF00003620753 bam 489.0 MB
EGAF00003620754 bam 604.3 MB
EGAF00003620755 bam 830.5 MB
EGAF00003620756 bam 645.3 MB
EGAF00003620757 bam 572.3 MB
EGAF00003620758 bam 1.4 GB
EGAF00003620759 bam 1.2 GB
EGAF00003620760 bam 1.1 GB
EGAF00003620761 bam 845.0 MB
EGAF00003620762 bam 578.4 MB
EGAF00003620763 bam 635.9 MB
EGAF00003620764 bam 494.5 MB
EGAF00003620765 bam 675.4 MB
EGAF00003620766 bam 734.4 MB
EGAF00003620767 bam 887.2 MB
EGAF00003620768 bam 867.5 MB
EGAF00003620769 bam 582.4 MB
EGAF00003620770 bam 1.4 GB
EGAF00003620771 bam 1.6 GB
EGAF00003620772 bam 553.4 MB
EGAF00003620773 bam 718.3 MB
EGAF00003620774 bam 1.7 GB
EGAF00003620775 bam 972.0 MB
EGAF00003620776 bam 889.5 MB
EGAF00003620777 bam 608.3 MB
EGAF00003620778 bam 634.8 MB
EGAF00003620779 bam 932.2 MB
EGAF00003620780 bam 478.0 MB
EGAF00003620781 bam 979.9 MB
EGAF00003620782 bam 1.6 GB
EGAF00003620783 bam 1.0 GB
EGAF00003620784 bam 493.2 MB
EGAF00003620785 bam 503.2 MB
EGAF00003620786 bam 832.5 MB
EGAF00003620787 bam 398.9 MB
EGAF00003620788 bam 864.7 MB
EGAF00003620789 bam 537.7 MB
EGAF00003620790 bam 1.3 GB
EGAF00003620791 bam 618.8 MB
EGAF00003620792 bam 587.6 MB
EGAF00003620793 bam 605.9 MB
EGAF00003620794 bam 666.5 MB
EGAF00003620795 bam 536.2 MB
EGAF00003620796 bam 440.0 MB
EGAF00003620797 bam 595.7 MB
EGAF00003620798 bam 529.3 MB
EGAF00003620799 bam 469.8 MB
EGAF00003620800 bam 494.5 MB
EGAF00003620801 bam 847.8 MB
EGAF00003620802 bam 735.6 MB
EGAF00003620803 bam 1.0 GB
EGAF00003620804 bam 539.2 MB
EGAF00003620805 bam 580.4 MB
EGAF00003620806 bam 745.8 MB
EGAF00003620807 bam 434.8 MB
EGAF00003620808 bam 438.4 MB
EGAF00003620809 bam 769.1 MB
EGAF00003620810 bam 594.6 MB
EGAF00003620811 bam 576.3 MB
EGAF00003620812 bam 952.5 MB
EGAF00003620813 bam 575.4 MB
EGAF00003620814 bam 474.7 MB
EGAF00003620815 bam 740.2 MB
EGAF00003620816 bam 893.0 MB
EGAF00003620817 bam 470.2 MB
EGAF00003620818 bam 826.0 MB
EGAF00003620819 bam 482.6 MB
EGAF00003620820 bam 1.1 GB
EGAF00003620821 bam 933.5 MB
EGAF00003620822 bam 533.9 MB
EGAF00003620823 bam 1.2 GB
EGAF00003620824 bam 405.8 MB
EGAF00003620825 bam 688.0 MB
EGAF00003620826 bam 539.3 MB
EGAF00003620827 bam 432.9 MB
EGAF00003620828 bam 492.4 MB
EGAF00003620829 bam 457.5 MB
EGAF00003620830 bam 474.3 MB
EGAF00003620831 bam 484.7 MB
EGAF00003620832 bam 474.7 MB
EGAF00003620833 bam 1.0 GB
EGAF00003620834 bam 643.6 MB
EGAF00003620835 bam 909.9 MB
EGAF00003620836 bam 1.1 GB
EGAF00003620837 bam 1.4 GB
EGAF00003620838 bam 1.1 GB
EGAF00003620839 bam 600.1 MB
EGAF00003620840 bam 684.3 MB
EGAF00003620841 bam 552.6 MB
EGAF00003620842 bam 517.5 MB
EGAF00003620843 bam 587.0 MB
EGAF00003621076 bam 591.4 MB
240 Files (163.2 GB)