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Targeted DNA panel sequencing analysis of PanNEN tumors of varying grades using custom and commercial panels

Targeted panel sequencing data from PanNEN samples. Sample ID is annotated in the following manner: each patient is given a number and "P" is appended to the patient number if it is a primary tumor, "M” if it is metastasis and "N" if it is normal (healthy tissue) sample. All NETG1 and NETG2 samples underwent panel sequencing using a custom panel (in-house PanNEN panel). All NEC and NETG3 samples (except PNET2, PNET77P and PNET77M) underwent panel sequencing using a commercial CCP panel.

Request Access

DNA methylation and Genetic data of Pancreatic Neuroendocrine Neoplasms Edit title and description

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 AC Data Access Committee 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: XXXXX 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. Institute of Pathology Charité, Universitätsmedizin Berlin Charitéplatz 1, D-10117 Berlin, Germany 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 ( ) and the Toronto Statement ( 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) ( ) in conformity with the Organisation for Economic Co-operation and Development Guidelines for the Licensing of the Genetic Inventions (2006) ( ). 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 AC Data Access Committee within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify AC Data Access Committee prior to any significant changes to the protocol for the Project. 14. The User Institution will notify AC Data Access Committee as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. AC 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. As an example, this may include specific provisions relating to the Data required by Data Producers other than AC Data Access Committee .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. 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 AC Data Access Committee 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 XXXXX intend to publish the results of their analysis of this dataset and do not consider its deposition into public databases to be the equivalent of such publications. XXXXX anticipate that the dataset could be useful to other qualified researchers for a variety of purposes. However, some areas of work are subject to a publication moratorium. The publication moratorium covers any publications (including oral communications) that describe the use of the dataset. For research papers, submission for publication should not occur until XX months after these data were first made available on the relevant hosting database, unless XXXXX has provided written consent to earlier submission. 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 (e.g., EGAS00000000029), and acknowledge its use in a form agreed by the User Institution with XXXXX.

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
EGAS00001005731 Cancer Genomics
ID File Type Size Located in
EGAF00005576524 bam 1.3 GB
EGAF00005576525 bai 2.2 MB
EGAF00005576526 bam 1.1 GB
EGAF00005576527 bai 2.1 MB
EGAF00005576528 bam 910.9 MB
EGAF00005576529 bai 1.7 MB
EGAF00005576530 bam 1.2 GB
EGAF00005576531 bai 2.0 MB
EGAF00005576532 bam 1.1 GB
EGAF00005576533 bai 2.0 MB
EGAF00005576534 bam 568.9 MB
EGAF00005576535 bai 1.9 MB
EGAF00005576536 bam 1.3 GB
EGAF00005576537 bai 2.2 MB
EGAF00005576538 bam 50.3 MB
EGAF00005576539 bai 2.2 MB
EGAF00005576540 bam 1.2 GB
EGAF00005576541 bai 2.2 MB
EGAF00005576542 bam 1.3 GB
EGAF00005576543 bai 2.1 MB
EGAF00005576544 bam 914.6 MB
EGAF00005576545 bai 2.1 MB
EGAF00005576546 bam 357.5 MB
EGAF00005576547 bai 2.8 MB
EGAF00005576548 bam 493.9 MB
EGAF00005576549 bai 1.8 MB
EGAF00005576550 bam 1.2 GB
EGAF00005576551 bai 2.1 MB
EGAF00005576552 bam 940.9 MB
EGAF00005576553 bai 1.8 MB
EGAF00005576554 bam 1.1 GB
EGAF00005576555 bai 4.8 MB
EGAF00005576556 bam 1.1 GB
EGAF00005576557 bai 3.1 MB
EGAF00005576558 bam 743.1 MB
EGAF00005576559 bai 1.9 MB
EGAF00005576560 bam 1.0 GB
EGAF00005576561 bai 1.9 MB
EGAF00005576562 bam 517.8 MB
EGAF00005576563 bai 1.7 MB
EGAF00005576564 bam 441.9 MB
EGAF00005576565 bai 1.8 MB
EGAF00005576566 bam 574.7 MB
EGAF00005576567 bai 2.1 MB
EGAF00005576568 bam 975.4 MB
EGAF00005576569 bai 1.9 MB
EGAF00005576570 bam 882.2 MB
EGAF00005576571 bai 2.2 MB
EGAF00005576572 bam 918.0 MB
EGAF00005576573 bai 1.8 MB
EGAF00005576574 bam 1.0 GB
EGAF00005576575 bai 2.4 MB
EGAF00005576576 bam 889.1 MB
EGAF00005576577 bai 2.1 MB
EGAF00005576578 bam 807.0 MB
EGAF00005576579 bai 4.5 MB
EGAF00005576580 bam 783.6 MB
EGAF00005576581 bai 2.0 MB
EGAF00005576582 bam 413.3 MB
EGAF00005576583 bai 2.4 MB
EGAF00005576584 bam 1.1 GB
EGAF00005576585 bai 2.2 MB
EGAF00005576586 bam 916.5 MB
EGAF00005576587 bai 3.4 MB
EGAF00005576588 bam 680.6 MB
EGAF00005576589 bai 2.1 MB
EGAF00005576590 bam 762.4 MB
EGAF00005576591 bai 1.7 MB
EGAF00005576592 bam 1.0 GB
EGAF00005576593 bai 2.5 MB
EGAF00005576594 bam 793.6 MB
EGAF00005576595 bai 2.1 MB
EGAF00005576596 bam 879.3 MB
EGAF00005576597 bai 1.9 MB
EGAF00005576598 bam 737.7 MB
EGAF00005576599 bai 1.8 MB
EGAF00005576600 bam 1.1 GB
EGAF00005576601 bai 2.1 MB
EGAF00005576602 bam 906.2 MB
EGAF00005576603 bai 2.2 MB
EGAF00005576604 bam 1.0 GB
EGAF00005576605 bai 2.5 MB
EGAF00005576606 bam 893.0 MB
EGAF00005576607 bai 2.2 MB
EGAF00005576608 bam 931.4 MB
EGAF00005576609 bai 2.1 MB
EGAF00005576610 bam 807.2 MB
EGAF00005576611 bai 1.8 MB
EGAF00005576612 bam 1.1 GB
EGAF00005576613 bai 1.9 MB
EGAF00005576614 bam 866.8 MB
EGAF00005576615 bai 2.1 MB
EGAF00005576616 bam 1.1 GB
EGAF00005576617 bai 2.1 MB
EGAF00005576618 bam 479.6 MB
EGAF00005576619 bai 1.8 MB
EGAF00005576620 bam 728.4 MB
EGAF00005576621 bai 1.8 MB
EGAF00005576622 bam 1.2 GB
EGAF00005576623 bai 2.0 MB
EGAF00005576624 bam 683.2 MB
EGAF00005576625 bai 1.9 MB
EGAF00005576626 bam 1.2 GB
EGAF00005576627 bai 2.2 MB
EGAF00005576628 bam 945.4 MB
EGAF00005576629 bai 1.8 MB
EGAF00005576630 bam 1.1 GB
EGAF00005576631 bai 2.1 MB
EGAF00005576632 bam 1.2 GB
EGAF00005576633 bai 1.9 MB
EGAF00005576634 bam 562.0 MB
EGAF00005576635 bai 1.8 MB
EGAF00005576636 bam 1.4 GB
EGAF00005576637 bai 1.8 MB
EGAF00005576638 bam 548.9 MB
EGAF00005576639 bai 1.8 MB
EGAF00005576640 bam 1.1 GB
EGAF00005576641 bai 2.1 MB
EGAF00005576642 bam 772.3 MB
EGAF00005576643 bai 2.3 MB
EGAF00005576644 bam 500.5 MB
EGAF00005576645 bai 1.8 MB
EGAF00005576646 bam 743.0 MB
EGAF00005576647 bai 2.2 MB
EGAF00005576648 bam 1.1 GB
EGAF00005576649 bai 2.0 MB
EGAF00005576650 bam 920.6 MB
EGAF00005576651 bai 1.9 MB
EGAF00005576652 bam 1.1 GB
EGAF00005576653 bai 2.2 MB
EGAF00005576654 bam 1.3 GB
EGAF00005576655 bai 2.3 MB
EGAF00005576656 bam 798.4 MB
EGAF00005576657 bai 1.9 MB
EGAF00005576658 bam 373.2 MB
EGAF00005576659 bai 1.7 MB
EGAF00005576660 bam 388.7 MB
EGAF00005576661 bai 2.2 MB
EGAF00005576662 bam 397.3 MB
EGAF00005576663 bai 2.4 MB
EGAF00005576664 bam 723.4 MB
EGAF00005576665 bai 1.9 MB
EGAF00005576666 bam 1.2 GB
EGAF00005576667 bai 2.2 MB
EGAF00005576668 bam 618.8 MB
EGAF00005576669 bai 2.4 MB
EGAF00005576670 bam 2.0 GB
EGAF00005576671 bai 2.4 MB
EGAF00005576672 bam 962.3 MB
EGAF00005576673 bai 2.4 MB
EGAF00005576674 bam 994.5 MB
EGAF00005576675 bai 1.9 MB
EGAF00005576676 bam 658.0 MB
EGAF00005576677 bai 2.0 MB
EGAF00005576678 bam 851.4 MB
EGAF00005576679 bai 1.9 MB
EGAF00005576680 bam 1.2 GB
EGAF00005576681 bai 2.1 MB
EGAF00005576682 bam 867.8 MB
EGAF00005576683 bai 1.9 MB
EGAF00005576684 bam 1.1 GB
EGAF00005576685 bai 2.0 MB
EGAF00005576686 bam 936.5 MB
EGAF00005576687 bai 2.3 MB
EGAF00005576688 bam 1.1 GB
EGAF00005576689 bai 2.5 MB
EGAF00005576690 bam 409.5 MB
EGAF00005576691 bai 1.8 MB
EGAF00005576692 bam 903.3 MB
EGAF00005576693 bai 3.9 MB
EGAF00005576694 bam 648.1 MB
EGAF00005576695 bai 3.4 MB
EGAF00005576696 bam 1.3 GB
EGAF00005576697 bai 2.5 MB
EGAF00005576698 bam 923.3 MB
EGAF00005576699 bai 2.0 MB
EGAF00005576700 bam 1.1 GB
EGAF00005576701 bai 1.9 MB
EGAF00005576702 bam 1.2 GB
EGAF00005576703 bai 2.2 MB
EGAF00005576704 bam 1.2 GB
EGAF00005576705 bai 2.1 MB
EGAF00005576706 bam 463.3 MB
EGAF00005576707 bai 1.7 MB
EGAF00005576708 bam 947.3 MB
EGAF00005576709 bai 2.5 MB
EGAF00005576710 bam 1.5 GB
EGAF00005576711 bai 2.0 MB
EGAF00005576712 bam 1.4 GB
EGAF00005576713 bai 3.4 MB
EGAF00005576714 bam 1.0 GB
EGAF00005576715 bai 2.0 MB
EGAF00005576716 bam 807.0 MB
EGAF00005576717 bai 1.9 MB
EGAF00005576718 bam 765.9 MB
EGAF00005576719 bai 1.9 MB
EGAF00005576720 bam 914.6 MB
EGAF00005576721 bai 1.9 MB
EGAF00005576722 bam 400.1 MB
EGAF00005576723 bai 1.8 MB
EGAF00005576724 bam 1.3 GB
EGAF00005576725 bai 2.0 MB
EGAF00005576726 bam 741.7 MB
EGAF00005576727 bai 1.8 MB
EGAF00005576728 bam 954.7 MB
EGAF00005576729 bai 5.0 MB
EGAF00005707404 vcf.gz 146.5 kB
EGAF00005707405 vcf.gz 243.0 kB
EGAF00005707406 vcf.gz 395.0 kB
EGAF00005707407 vcf.gz 130.0 kB
EGAF00005707408 vcf.gz 88.7 kB
EGAF00005707409 vcf.gz 150.8 kB
EGAF00005707410 vcf.gz 140.5 kB
EGAF00005707411 vcf.gz 137.1 kB
EGAF00005707412 vcf.gz 138.9 kB
EGAF00005707413 vcf.gz 112.9 kB
EGAF00005707414 vcf.gz 123.4 kB
EGAF00005707415 vcf.gz 122.3 kB
EGAF00005707416 vcf.gz 88.3 kB
EGAF00005707417 vcf.gz 26.7 kB
EGAF00005707418 vcf.gz 23.9 kB
EGAF00005707419 vcf.gz 30.2 kB
EGAF00005707420 vcf.gz 22.8 kB
EGAF00005707421 vcf.gz 24.9 kB
EGAF00005707422 vcf.gz 29.5 kB
EGAF00005707423 vcf.gz 25.2 kB
EGAF00005707424 vcf.gz 23.6 kB
EGAF00005707425 vcf.gz 21.5 kB
EGAF00005707426 vcf.gz 25.2 kB
EGAF00005707427 vcf.gz 26.4 kB
EGAF00005707428 vcf.gz 25.7 kB
EGAF00005707429 vcf.gz 22.6 kB
EGAF00005707430 vcf.gz 24.8 kB
EGAF00005707431 vcf.gz 27.6 kB
EGAF00005707432 vcf.gz 32.0 kB
EGAF00005707433 vcf.gz 29.9 kB
EGAF00005707434 vcf.gz 92.1 kB
EGAF00005707435 vcf.gz 25.5 kB
EGAF00005707436 vcf.gz 25.9 kB
EGAF00005707437 vcf.gz 28.5 kB
EGAF00005707438 vcf.gz 23.6 kB
EGAF00005707439 vcf.gz 21.9 kB
EGAF00005707440 vcf.gz 23.9 kB
EGAF00005707441 vcf.gz 26.6 kB
EGAF00005707442 vcf.gz 22.0 kB
EGAF00005707443 vcf.gz 23.8 kB
EGAF00005707444 vcf.gz 22.8 kB
EGAF00005707445 vcf.gz 21.4 kB
EGAF00005707446 vcf.gz 24.4 kB
EGAF00005707447 vcf.gz 24.1 kB
EGAF00005707448 vcf.gz 25.6 kB
EGAF00005707449 vcf.gz 22.2 kB
EGAF00005707450 vcf.gz 27.1 kB
EGAF00005707451 vcf.gz 24.1 kB
EGAF00005707452 vcf.gz 152.5 kB
EGAF00005707453 vcf.gz 311.5 kB
EGAF00005707454 vcf.gz 248.1 kB
EGAF00005707455 vcf.gz 151.8 kB
EGAF00005707456 vcf.gz 484.3 kB
EGAF00005707457 vcf.gz 163.1 kB
EGAF00005707458 vcf.gz 791.8 kB
EGAF00005707459 vcf.gz 139.4 kB
EGAF00005707460 vcf.gz 114.8 kB
EGAF00005707461 vcf.gz 28.4 kB
EGAF00005707462 vcf.gz 43.6 kB
EGAF00005707463 vcf.gz 44.9 kB
EGAF00005707464 vcf.gz 29.8 kB
EGAF00005707465 vcf.gz 47.7 kB
EGAF00005707466 vcf.gz 31.9 kB
EGAF00005707467 vcf.gz 43.1 kB
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EGAF00005707472 vcf.gz 20.6 kB
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EGAF00005707475 vcf.gz 27.2 kB
EGAF00005707476 vcf.gz 21.6 kB
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EGAF00005707478 vcf.gz 40.6 kB
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EGAF00005707483 vcf.gz 99.0 kB
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EGAF00005707492 vcf.gz 22.6 kB
EGAF00005707493 vcf.gz 21.6 kB
EGAF00005707494 vcf.gz 27.3 kB
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EGAF00005707497 vcf.gz 23.6 kB
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EGAF00005707500 vcf.gz 215.9 kB
EGAF00005707501 vcf.gz 164.2 kB
EGAF00005707502 vcf.gz 304.5 kB
EGAF00005707503 vcf.gz 196.4 kB
EGAF00005707504 vcf.gz 2.9 kB
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EGAF00005707506 vcf.gz 73.8 kB
309 Files (93.6 GB)