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Whole genome sequencing

Whole genome sequencing of high-grade serous ovarian cancer (HGSC) tumours and matched normals from 15 patients with homologous recombination deficiencies. The dataset includes fastq files from 56 HGSC tumours (1 primary, 1 relapse, 54 end-stage) and 15 matched normals. Sequence libraries were generated from tumour and matched normal genomic DNA using the KAPA HyperPrep PCR-free library preparation kit (Roche), or the Illumina TruSeq DNA Nano kit according to manufacturer’s instructions. Sequencing was carried out by the Kinghorn Centre for Clinical Genomics Sequencing Laboratory (Sydney, Australia) on the HiSeq X Ten System (Illumina) or by the Australian Genome Research Facility (Melbourne, Australia) on an Illumina NovaSeq to a minimum base coverage of 30-fold for normal DNA and 60-fold for tumour DNA samples.

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Peter MacCallum Cancer Centre Research Data Access Committee data access policy

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 and privacy of Research Participants in any research papers or publications that they prepare by using their best efforts 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 User Institution that may arise (whether directly or indirectly) in any way whatsoever from the User Institution’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 Authorship guide 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 relating to the Data. 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 Peter Mac within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify Peter Mac prior to any significant changes to the protocol for the Project. 14. The User Institution will notify Peter Mac as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. Peter Mac may terminate this agreement by written notice to the User Institution at any time and for any reason or no reason. If this agreement is terminated, 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 Peter Mac. 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 by Peter Mac or its delegate 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 Victoria, Australia, and shall be subject to the exclusive jurisdiction of the Victorian courts. 20. The User Institution agrees that its rights and obligations hereunder are not assignable. 21. This agreement does not constitute any party the agent of another or imply that the parties intend constituting a partnership, joint venture or other form of association in which any party may be liable for the acts or omissions of the other.

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
EGAS00001006789 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
EGAF00007772984 fastq.gz 16.6 GB
EGAF00007772985 fastq.gz 16.8 GB
EGAF00007772986 fastq.gz 16.6 GB
EGAF00007772987 fastq.gz 17.0 GB
EGAF00007772988 fastq.gz 20.6 GB
EGAF00007772989 fastq.gz 21.4 GB
EGAF00007772990 fastq.gz 20.0 GB
EGAF00007772991 fastq.gz 21.1 GB
EGAF00007772992 fastq.gz 12.8 GB
EGAF00007772993 fastq.gz 13.1 GB
EGAF00007772994 fastq.gz 12.9 GB
EGAF00007772995 fastq.gz 13.4 GB
EGAF00007772996 fastq.gz 13.5 GB
EGAF00007772997 fastq.gz 13.8 GB
EGAF00007772998 fastq.gz 13.1 GB
EGAF00007772999 fastq.gz 13.6 GB
EGAF00007773000 fastq.gz 15.5 GB
EGAF00007773001 fastq.gz 16.1 GB
EGAF00007773002 fastq.gz 15.4 GB
EGAF00007773003 fastq.gz 16.2 GB
EGAF00007773004 fastq.gz 12.0 GB
EGAF00007773005 fastq.gz 12.2 GB
EGAF00007773006 fastq.gz 11.8 GB
EGAF00007773007 fastq.gz 12.2 GB
EGAF00007773014 fastq.gz 18.9 GB
EGAF00007773015 fastq.gz 19.4 GB
EGAF00007773016 fastq.gz 18.6 GB
EGAF00007773017 fastq.gz 19.3 GB
EGAF00007773018 fastq.gz 16.4 GB
EGAF00007773019 fastq.gz 17.0 GB
EGAF00007773020 fastq.gz 16.1 GB
EGAF00007773021 fastq.gz 16.9 GB
EGAF00007773028 fastq.gz 17.2 GB
EGAF00007773029 fastq.gz 17.7 GB
EGAF00007773030 fastq.gz 17.4 GB
EGAF00007773031 fastq.gz 18.2 GB
EGAF00007773032 fastq.gz 10.6 GB
EGAF00007773033 fastq.gz 11.0 GB
EGAF00007773034 fastq.gz 10.4 GB
EGAF00007773035 fastq.gz 11.0 GB
EGAF00007773036 fastq.gz 14.3 GB
EGAF00007773037 fastq.gz 14.5 GB
EGAF00007773038 fastq.gz 14.1 GB
EGAF00007773039 fastq.gz 14.6 GB
EGAF00007773040 fastq.gz 15.1 GB
EGAF00007773041 fastq.gz 15.3 GB
EGAF00007773042 fastq.gz 14.7 GB
EGAF00007773043 fastq.gz 15.2 GB
EGAF00007773044 fastq.gz 17.7 GB
EGAF00007773045 fastq.gz 18.3 GB
EGAF00007773046 fastq.gz 17.6 GB
EGAF00007773047 fastq.gz 18.5 GB
EGAF00007773048 fastq.gz 18.2 GB
EGAF00007773049 fastq.gz 18.8 GB
EGAF00007773050 fastq.gz 8.8 GB
EGAF00007773051 fastq.gz 9.1 GB
EGAF00007773496 fastq.gz 36.4 GB
EGAF00007773497 fastq.gz 36.9 GB
EGAF00007773498 fastq.gz 27.6 GB
EGAF00007773499 fastq.gz 27.9 GB
EGAF00007773500 fastq.gz 28.9 GB
EGAF00007773501 fastq.gz 29.8 GB
EGAF00007773502 fastq.gz 26.7 GB
EGAF00007773503 fastq.gz 27.0 GB
EGAF00007773504 fastq.gz 26.4 GB
EGAF00007773505 fastq.gz 27.5 GB
EGAF00007773506 fastq.gz 28.0 GB
EGAF00007773507 fastq.gz 29.0 GB
EGAF00007773508 fastq.gz 31.6 GB
EGAF00007773509 fastq.gz 32.7 GB
EGAF00007773516 fastq.gz 33.0 GB
EGAF00007773517 fastq.gz 34.5 GB
EGAF00007773518 fastq.gz 26.4 GB
EGAF00007773519 fastq.gz 27.5 GB
EGAF00007773520 fastq.gz 35.2 GB
EGAF00007773521 fastq.gz 36.5 GB
EGAF00007773522 fastq.gz 27.2 GB
EGAF00007773523 fastq.gz 27.8 GB
EGAF00007773524 fastq.gz 32.1 GB
EGAF00007773525 fastq.gz 33.4 GB
EGAF00007773526 fastq.gz 29.0 GB
EGAF00007773527 fastq.gz 30.5 GB
EGAF00007773528 fastq.gz 27.5 GB
EGAF00007773529 fastq.gz 28.4 GB
EGAF00007773530 fastq.gz 31.3 GB
EGAF00007773531 fastq.gz 32.0 GB
EGAF00007773532 fastq.gz 32.6 GB
EGAF00007773533 fastq.gz 33.9 GB
EGAF00007773540 fastq.gz 30.4 GB
EGAF00007773541 fastq.gz 31.0 GB
EGAF00007773542 fastq.gz 27.2 GB
EGAF00007773543 fastq.gz 27.7 GB
EGAF00007773544 fastq.gz 58.3 GB
EGAF00007773545 fastq.gz 60.7 GB
EGAF00007773546 fastq.gz 28.5 GB
EGAF00007773547 fastq.gz 28.8 GB
EGAF00007773548 fastq.gz 36.0 GB
EGAF00007773549 fastq.gz 37.1 GB
EGAF00007773550 fastq.gz 30.4 GB
EGAF00007773551 fastq.gz 31.0 GB
EGAF00007773561 fastq.gz 33.0 GB
EGAF00007773562 fastq.gz 33.6 GB
EGAF00007773563 fastq.gz 29.6 GB
EGAF00007773564 fastq.gz 30.0 GB
EGAF00007773565 fastq.gz 29.4 GB
EGAF00007773566 fastq.gz 30.0 GB
EGAF00007773567 fastq.gz 26.4 GB
EGAF00007773568 fastq.gz 28.3 GB
EGAF00007773569 fastq.gz 33.0 GB
EGAF00007773570 fastq.gz 33.9 GB
EGAF00007773571 fastq.gz 28.9 GB
EGAF00007773572 fastq.gz 29.6 GB
EGAF00007773573 fastq.gz 28.4 GB
EGAF00007773574 fastq.gz 29.6 GB
EGAF00007773581 fastq.gz 41.0 GB
EGAF00007773582 fastq.gz 42.0 GB
EGAF00007773583 fastq.gz 25.5 GB
EGAF00007773584 fastq.gz 25.9 GB
EGAF00007773585 fastq.gz 31.1 GB
EGAF00007773586 fastq.gz 31.9 GB
EGAF00007773587 fastq.gz 25.2 GB
EGAF00007773588 fastq.gz 25.4 GB
EGAF00007773589 fastq.gz 35.1 GB
EGAF00007773590 fastq.gz 36.0 GB
EGAF00007773591 fastq.gz 29.3 GB
EGAF00007773592 fastq.gz 29.9 GB
EGAF00007773593 fastq.gz 27.6 GB
EGAF00007773594 fastq.gz 28.4 GB
EGAF00007773598 fastq.gz 16.2 GB
EGAF00007773599 fastq.gz 17.0 GB
EGAF00007773600 fastq.gz 19.2 GB
EGAF00007773601 fastq.gz 19.8 GB
EGAF00007773602 fastq.gz 27.5 GB
EGAF00007773603 fastq.gz 28.6 GB
EGAF00007773604 fastq.gz 27.7 GB
EGAF00007773605 fastq.gz 28.6 GB
EGAF00007773606 fastq.gz 26.0 GB
EGAF00007773607 fastq.gz 26.4 GB
EGAF00007773608 fastq.gz 31.3 GB
EGAF00007773609 fastq.gz 32.5 GB
EGAF00007773610 fastq.gz 31.5 GB
EGAF00007773611 fastq.gz 32.4 GB
EGAF00007773612 fastq.gz 26.5 GB
EGAF00007773613 fastq.gz 27.5 GB
EGAF00007773614 fastq.gz 26.7 GB
EGAF00007773615 fastq.gz 27.6 GB
EGAF00007773619 fastq.gz 31.7 GB
EGAF00007773620 fastq.gz 32.8 GB
EGAF00007773621 fastq.gz 31.8 GB
EGAF00007773622 fastq.gz 32.7 GB
EGAF00007773623 fastq.gz 27.7 GB
EGAF00007773624 fastq.gz 28.6 GB
EGAF00007773625 fastq.gz 27.8 GB
EGAF00007773626 fastq.gz 28.6 GB
EGAF00007773627 fastq.gz 27.8 GB
EGAF00007773628 fastq.gz 28.8 GB
EGAF00007773629 fastq.gz 27.9 GB
EGAF00007773630 fastq.gz 28.8 GB
EGAF00007773631 fastq.gz 19.6 GB
EGAF00007773632 fastq.gz 20.6 GB
EGAF00007773633 fastq.gz 14.4 GB
EGAF00007773634 fastq.gz 14.9 GB
EGAF00007773638 fastq.gz 38.2 GB
EGAF00007773639 fastq.gz 43.6 GB
EGAF00007773640 fastq.gz 36.4 GB
EGAF00007773641 fastq.gz 41.2 GB
EGAF00007773642 fastq.gz 37.8 GB
EGAF00007773643 fastq.gz 43.0 GB
EGAF00007773644 fastq.gz 38.0 GB
EGAF00007773645 fastq.gz 43.5 GB
EGAF00007773646 fastq.gz 40.3 GB
EGAF00007773647 fastq.gz 46.4 GB
EGAF00007773648 fastq.gz 38.2 GB
EGAF00007773649 fastq.gz 45.3 GB
EGAF00007773650 fastq.gz 37.5 GB
EGAF00007773651 fastq.gz 44.7 GB
EGAF00007773652 fastq.gz 40.4 GB
EGAF00007773653 fastq.gz 46.9 GB
EGAF00007773654 fastq.gz 37.8 GB
EGAF00007773655 fastq.gz 44.5 GB
EGAF00007773656 fastq.gz 40.6 GB
EGAF00007773657 fastq.gz 48.4 GB
EGAF00007773658 fastq.gz 42.5 GB
EGAF00007773659 fastq.gz 49.9 GB
EGAF00007773660 fastq.gz 41.2 GB
EGAF00007773661 fastq.gz 49.7 GB
EGAF00007773662 fastq.gz 37.7 GB
EGAF00007773663 fastq.gz 46.3 GB
EGAF00007773664 fastq.gz 39.9 GB
EGAF00007773665 fastq.gz 45.5 GB
EGAF00007773666 fastq.gz 39.5 GB
EGAF00007773667 fastq.gz 47.7 GB
EGAF00007773668 fastq.gz 39.2 GB
EGAF00007773669 fastq.gz 47.0 GB
EGAF00007773670 fastq.gz 40.4 GB
EGAF00007773671 fastq.gz 47.2 GB
EGAF00007773672 fastq.gz 42.7 GB
EGAF00007773673 fastq.gz 50.3 GB
EGAF00007773674 fastq.gz 42.2 GB
EGAF00007773675 fastq.gz 49.7 GB
EGAF00007773676 fastq.gz 40.5 GB
EGAF00007773677 fastq.gz 46.9 GB
EGAF00007773678 fastq.gz 38.7 GB
EGAF00007773679 fastq.gz 45.0 GB
EGAF00007773680 fastq.gz 41.6 GB
EGAF00007773681 fastq.gz 48.4 GB
EGAF00007773682 fastq.gz 41.9 GB
EGAF00007773683 fastq.gz 48.0 GB
EGAF00007773684 fastq.gz 37.0 GB
EGAF00007773685 fastq.gz 44.0 GB
EGAF00007773686 fastq.gz 41.2 GB
EGAF00007773687 fastq.gz 50.4 GB
EGAF00007773688 fastq.gz 40.5 GB
EGAF00007773689 fastq.gz 50.0 GB
EGAF00007773690 fastq.gz 39.2 GB
EGAF00007773691 fastq.gz 46.2 GB
EGAF00007773692 fastq.gz 38.7 GB
EGAF00007773693 fastq.gz 45.2 GB
EGAF00007773694 fastq.gz 37.8 GB
EGAF00007773695 fastq.gz 44.5 GB
EGAF00007773696 fastq.gz 38.6 GB
EGAF00007773697 fastq.gz 45.2 GB
EGAF00007773698 fastq.gz 39.0 GB
EGAF00007773699 fastq.gz 46.1 GB
EGAF00007773700 fastq.gz 37.3 GB
EGAF00007773701 fastq.gz 42.9 GB
EGAF00007773702 fastq.gz 38.9 GB
EGAF00007773703 fastq.gz 45.5 GB
EGAF00007773704 fastq.gz 39.4 GB
EGAF00007773705 fastq.gz 46.1 GB
EGAF00007773706 fastq.gz 40.2 GB
EGAF00007773707 fastq.gz 46.4 GB
EGAF00007773708 fastq.gz 40.6 GB
EGAF00007773709 fastq.gz 46.7 GB
EGAF00007773710 fastq.gz 40.3 GB
EGAF00007773711 fastq.gz 46.4 GB
EGAF00007773712 fastq.gz 41.2 GB
EGAF00007773713 fastq.gz 47.8 GB
EGAF00007773714 fastq.gz 39.7 GB
EGAF00007773715 fastq.gz 45.5 GB
EGAF00007773716 fastq.gz 41.1 GB
EGAF00007773717 fastq.gz 47.8 GB
EGAF00007773718 fastq.gz 41.1 GB
EGAF00007773719 fastq.gz 47.9 GB
EGAF00007773720 fastq.gz 40.5 GB
EGAF00007773721 fastq.gz 46.7 GB
EGAF00007773722 fastq.gz 39.5 GB
EGAF00007773723 fastq.gz 46.8 GB
EGAF00007773724 fastq.gz 39.5 GB
EGAF00007773725 fastq.gz 46.2 GB
EGAF00007773726 fastq.gz 38.7 GB
EGAF00007773727 fastq.gz 45.6 GB
EGAF00007773728 fastq.gz 39.1 GB
EGAF00007773729 fastq.gz 45.6 GB
EGAF00007773730 fastq.gz 39.9 GB
EGAF00007773731 fastq.gz 46.3 GB
EGAF00007773732 fastq.gz 39.4 GB
EGAF00007773733 fastq.gz 46.2 GB
EGAF00007773734 fastq.gz 39.2 GB
EGAF00007773735 fastq.gz 45.4 GB
EGAF00007773736 fastq.gz 40.2 GB
EGAF00007773737 fastq.gz 47.8 GB
EGAF00007773738 fastq.gz 31.8 GB
EGAF00007773739 fastq.gz 37.1 GB
EGAF00007773740 fastq.gz 39.5 GB
EGAF00007773741 fastq.gz 48.7 GB
EGAF00007773742 fastq.gz 40.2 GB
EGAF00007773743 fastq.gz 48.7 GB
268 Files (8.6 TB)