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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
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 1669217421474 16.6 GB
EGAF00007772985 1669217421474 16.8 GB
EGAF00007772986 1669231821313 16.6 GB
EGAF00007772987 1669226421068 17.0 GB
EGAF00007772988 1669266021064 20.6 GB
EGAF00007772989 1669246221110 21.4 GB
EGAF00007772990 1669228221405 20.0 GB
EGAF00007772991 1669216521515 21.1 GB
EGAF00007772992 1669221921327 12.8 GB
EGAF00007772993 1669223721239 13.1 GB
EGAF00007772994 1669214722352 12.9 GB
EGAF00007772995 1669238121270 13.4 GB
EGAF00007772996 1669225521314 13.5 GB
EGAF00007772997 1669214722352 13.8 GB
EGAF00007772998 1669222821139 13.1 GB
EGAF00007772999 1669214722352 13.6 GB
EGAF00007773000 1669221921328 15.5 GB
EGAF00007773001 1669223721239 16.1 GB
EGAF00007773002 1669223721239 15.4 GB
EGAF00007773003 1669223721239 16.2 GB
EGAF00007773004 1669225521314 12.0 GB
EGAF00007773005 1669224621154 12.2 GB
EGAF00007773006 1669232721609 11.8 GB
EGAF00007773007 1669222821139 12.2 GB
EGAF00007773014 1669212922024 18.9 GB
EGAF00007773015 1669232721609 19.4 GB
EGAF00007773016 1669225521313 18.6 GB
EGAF00007773017 1669217421474 19.3 GB
EGAF00007773018 1669216521515 16.4 GB
EGAF00007773019 1669218321544 17.0 GB
EGAF00007773020 1669221921326 16.1 GB
EGAF00007773021 1669237221630 16.9 GB
EGAF00007773028 1669231821313 17.2 GB
EGAF00007773029 1669227321205 17.7 GB
EGAF00007773030 1669216521515 17.4 GB
EGAF00007773031 1669222821139 18.2 GB
EGAF00007773032 1669215621462 10.6 GB
EGAF00007773033 1669212922024 11.0 GB
EGAF00007773034 1669242621195 10.4 GB
EGAF00007773035 1669215621461 11.0 GB
EGAF00007773036 1669219221740 14.3 GB
EGAF00007773037 1669228221406 14.5 GB
EGAF00007773038 1669225521313 14.1 GB
EGAF00007773039 1669221921327 14.6 GB
EGAF00007773040 1669215621461 15.1 GB
EGAF00007773041 1669224621154 15.3 GB
EGAF00007773042 1669212922024 14.7 GB
EGAF00007773043 1669221021232 15.2 GB
EGAF00007773044 1669219221741 17.7 GB
EGAF00007773045 1669227321205 18.3 GB
EGAF00007773046 1669230921241 17.6 GB
EGAF00007773047 1669228221405 18.5 GB
EGAF00007773048 1669224621154 18.2 GB
EGAF00007773049 1669227321205 18.8 GB
EGAF00007773050 1669220121581 8.8 GB
EGAF00007773051 1669222821139 9.1 GB
EGAF00007773496 1669264221389 36.4 GB
EGAF00007773497 1669234521306 36.9 GB
EGAF00007773498 1669221021232 27.6 GB
EGAF00007773499 1669220121580 27.9 GB
EGAF00007773500 1669238121270 28.9 GB
EGAF00007773501 1669248198230 29.8 GB
EGAF00007773502 1669218321544 26.7 GB
EGAF00007773503 1669239922362 27.0 GB
EGAF00007773504 1669234521306 26.4 GB
EGAF00007773505 1669230921241 27.5 GB
EGAF00007773506 1669227321205 28.0 GB
EGAF00007773507 1669217421474 29.0 GB
EGAF00007773508 1669236321177 31.6 GB
EGAF00007773509 1669224621154 32.7 GB
EGAF00007773516 1669223721239 33.0 GB
EGAF00007773517 1669215621461 34.5 GB
EGAF00007773518 1669221021232 26.4 GB
EGAF00007773519 1669240821335 27.5 GB
EGAF00007773520 1669250722941 35.2 GB
EGAF00007773521 1669236321177 36.5 GB
EGAF00007773522 1669226421068 27.2 GB
EGAF00007773523 1669260621015 27.8 GB
EGAF00007773524 1669228221405 32.1 GB
EGAF00007773525 1669215621461 33.4 GB
EGAF00007773526 1669218321544 29.0 GB
EGAF00007773527 1669237221630 30.5 GB
EGAF00007773528 1669212021653 27.5 GB
EGAF00007773529 1669221921326 28.4 GB
EGAF00007773530 1669235421556 31.3 GB
EGAF00007773531 1669211121251 32.0 GB
EGAF00007773532 1669222821139 32.6 GB
EGAF00007773533 1669264221389 33.9 GB
EGAF00007773540 1669261521105 30.4 GB
EGAF00007773541 1669241721159 31.0 GB
EGAF00007773542 1669235421557 27.2 GB
EGAF00007773543 1669243521786 27.7 GB
EGAF00007773544 1669245321070 58.3 GB
EGAF00007773545 1669239922362 60.7 GB
EGAF00007773546 1669238121270 28.5 GB
EGAF00007773547 1669235421556 28.8 GB
EGAF00007773548 1669263321225 36.0 GB
EGAF00007773549 1669215621461 37.1 GB
EGAF00007773550 1669269621041 30.4 GB
EGAF00007773551 1669213821225 31.0 GB
EGAF00007773561 1669228221405 33.0 GB
EGAF00007773562 1669231821313 33.6 GB
EGAF00007773563 1669246221108 29.6 GB
EGAF00007773564 1669235421556 30.0 GB
EGAF00007773565 1669223721239 29.4 GB
EGAF00007773566 1669221021232 30.0 GB
EGAF00007773567 1669265121099 26.4 GB
EGAF00007773568 1669211121251 28.3 GB
EGAF00007773569 1669223721239 33.0 GB
EGAF00007773570 1669213821225 33.9 GB
EGAF00007773571 1669212922024 28.9 GB
EGAF00007773572 1669237221630 29.6 GB
EGAF00007773573 1669219221741 28.4 GB
EGAF00007773574 1669262421047 29.6 GB
EGAF00007773581 1669237221630 41.0 GB
EGAF00007773582 1669241721159 42.0 GB
EGAF00007773583 1669222821139 25.5 GB
EGAF00007773584 1669210221618 25.9 GB
EGAF00007773585 1669241721159 31.1 GB
EGAF00007773586 1669235421556 31.9 GB
EGAF00007773587 1669268721050 25.2 GB
EGAF00007773588 1669219221741 25.4 GB
EGAF00007773589 1669233621172 35.1 GB
EGAF00007773590 1669243521786 36.0 GB
EGAF00007773591 1669239922362 29.3 GB
EGAF00007773592 1669240821335 29.9 GB
EGAF00007773593 1669217421474 27.6 GB
EGAF00007773594 1669226421068 28.4 GB
EGAF00007773598 1669214722352 16.2 GB
EGAF00007773599 1669221921326 17.0 GB
EGAF00007773600 1669213821225 19.2 GB
EGAF00007773601 1669217421474 19.8 GB
EGAF00007773602 1669213821225 27.5 GB
EGAF00007773603 1669225521313 28.6 GB
EGAF00007773604 1669225521313 27.7 GB
EGAF00007773605 1669237221630 28.6 GB
EGAF00007773606 1669221921327 26.0 GB
EGAF00007773607 1669233621172 26.4 GB
EGAF00007773608 1669228221405 31.3 GB
EGAF00007773609 1669218321544 32.5 GB
EGAF00007773610 1669225521313 31.5 GB
EGAF00007773611 1669269621041 32.4 GB
EGAF00007773612 1669225521313 26.5 GB
EGAF00007773613 1669239021151 27.5 GB
EGAF00007773614 1669211121251 26.7 GB
EGAF00007773615 1669227321205 27.6 GB
EGAF00007773619 1669231821313 31.7 GB
EGAF00007773620 1669263321225 32.8 GB
EGAF00007773621 1669236321176 31.8 GB
EGAF00007773622 1669232721609 32.7 GB
EGAF00007773623 1669233621172 27.7 GB
EGAF00007773624 1669239922362 28.6 GB
EGAF00007773625 1669225521313 27.8 GB
EGAF00007773626 1669235421556 28.6 GB
EGAF00007773627 1669222821139 27.8 GB
EGAF00007773628 1669263321225 28.8 GB
EGAF00007773629 1669228221405 27.9 GB
EGAF00007773630 1669235421556 28.8 GB
EGAF00007773631 1669225521313 19.6 GB
EGAF00007773632 1669212021654 20.6 GB
EGAF00007773633 1669211121251 14.4 GB
EGAF00007773634 1669224621154 14.9 GB
EGAF00007773638 1669237221630 38.2 GB
EGAF00007773639 1669226421068 43.6 GB
EGAF00007773640 1669225521313 36.4 GB
EGAF00007773641 1669241721159 41.2 GB
EGAF00007773642 1669237221630 37.8 GB
EGAF00007773643 1669230021150 43.0 GB
EGAF00007773644 1669212922024 38.0 GB
EGAF00007773645 1669219221740 43.5 GB
EGAF00007773646 1669212021654 40.3 GB
EGAF00007773647 1669239922362 46.4 GB
EGAF00007773648 1669234521306 38.2 GB
EGAF00007773649 1669235421556 45.3 GB
EGAF00007773650 1669241721159 37.5 GB
EGAF00007773651 1669238121270 44.7 GB
EGAF00007773652 1669228221405 40.4 GB
EGAF00007773653 1669269621041 46.9 GB
EGAF00007773654 1669234521306 37.8 GB
EGAF00007773655 1669212922024 44.5 GB
EGAF00007773656 1669238121271 40.6 GB
EGAF00007773657 1669243521786 48.4 GB
EGAF00007773658 1669241721159 42.5 GB
EGAF00007773659 1669235421556 49.9 GB
EGAF00007773660 1669271421014 41.2 GB
EGAF00007773661 1669273221010 49.7 GB
EGAF00007773662 1669237221630 37.7 GB
EGAF00007773663 1669264221389 46.3 GB
EGAF00007773664 1669268721050 39.9 GB
EGAF00007773665 1669245321070 45.5 GB
EGAF00007773666 1669236321176 39.5 GB
EGAF00007773667 1669241721159 47.7 GB
EGAF00007773668 1669222821139 39.2 GB
EGAF00007773669 1669219221740 47.0 GB
EGAF00007773670 1669271421014 40.4 GB
EGAF00007773671 1669217421474 47.2 GB
EGAF00007773672 1669238121270 42.7 GB
EGAF00007773673 1669233621172 50.3 GB
EGAF00007773674 1669221921327 42.2 GB
EGAF00007773675 1669232721609 49.7 GB
EGAF00007773676 1669212021654 40.5 GB
EGAF00007773677 1669243521786 46.9 GB
EGAF00007773678 1669229121060 38.7 GB
EGAF00007773679 1669272321029 45.0 GB
EGAF00007773680 1669233621172 41.6 GB
EGAF00007773681 1669227321205 48.4 GB
EGAF00007773682 1669217421475 41.9 GB
EGAF00007773683 1669266021064 48.0 GB
EGAF00007773684 1669241721159 37.0 GB
EGAF00007773685 1669270521098 44.0 GB
EGAF00007773686 1669239021151 41.2 GB
EGAF00007773687 1669243521786 50.4 GB
EGAF00007773688 1669262421047 40.5 GB
EGAF00007773689 1669270521098 50.0 GB
EGAF00007773690 1669261521105 39.2 GB
EGAF00007773691 1669233621172 46.2 GB
EGAF00007773692 1669267821015 38.7 GB
EGAF00007773693 1669266921028 45.2 GB
EGAF00007773694 1669241721159 37.8 GB
EGAF00007773695 1669258821292 44.5 GB
EGAF00007773696 1669235421556 38.6 GB
EGAF00007773697 1669216521515 45.2 GB
EGAF00007773698 1669261521105 39.0 GB
EGAF00007773699 1669244421670 46.1 GB
EGAF00007773700 1669220121581 37.3 GB
EGAF00007773701 1669224621154 42.9 GB
EGAF00007773702 1669234521306 38.9 GB
EGAF00007773703 1669231821313 45.5 GB
EGAF00007773704 1669224621154 39.4 GB
EGAF00007773705 1669255261196 46.1 GB
EGAF00007773706 1669238121270 40.2 GB
EGAF00007773707 1669221921327 46.4 GB
EGAF00007773708 1669242621195 40.6 GB
EGAF00007773709 1669272321029 46.7 GB
EGAF00007773710 1669268721050 40.3 GB
EGAF00007773711 1669239021151 46.4 GB
EGAF00007773712 1669221021232 41.2 GB
EGAF00007773713 1669242621195 47.8 GB
EGAF00007773714 1669246221108 39.7 GB
EGAF00007773715 1669272321029 45.5 GB
EGAF00007773716 1669230921241 41.1 GB
EGAF00007773717 1669264221389 47.8 GB
EGAF00007773718 1669244421670 41.1 GB
EGAF00007773719 1669239922362 47.9 GB
EGAF00007773720 1669227321205 40.5 GB
EGAF00007773721 1669264221389 46.7 GB
EGAF00007773722 1669261521105 39.5 GB
EGAF00007773723 1669245321070 46.8 GB
EGAF00007773724 1669225521313 39.5 GB
EGAF00007773725 1669265121099 46.2 GB
EGAF00007773726 1669233621172 38.7 GB
EGAF00007773727 1669230921241 45.6 GB
EGAF00007773728 1669263321225 39.1 GB
EGAF00007773729 1669264221389 45.6 GB
EGAF00007773730 1669230021150 39.9 GB
EGAF00007773731 1669242621195 46.3 GB
EGAF00007773732 1669216521515 39.4 GB
EGAF00007773733 1669256126129 46.2 GB
EGAF00007773734 1669239021151 39.2 GB
EGAF00007773735 1669265121099 45.4 GB
EGAF00007773736 1669237221630 40.2 GB
EGAF00007773737 1669237221630 47.8 GB
EGAF00007773738 1669231821313 31.8 GB
EGAF00007773739 1669230021150 37.1 GB
EGAF00007773740 1669238121270 39.5 GB
EGAF00007773741 1669225521313 48.7 GB
EGAF00007773742 1669264221389 40.2 GB
EGAF00007773743 1669247121033 48.7 GB
268 Files (8.6 TB)