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Pediatric Papillary Thyroid Carcinoma Whole Exome Sequencing

Exome libraries from 47 blood and tissue samples were prepared using Agilent SureSelect Human Exome Library Preparation V5 kit and the Agilent Bravo Automation System fExome libraries were pooled and sequenced with the TruSeq SBS sequencing chemistry using a V4 high throughput flowcell on a HiSeq 2500 platform following Illumina’s recommended protocol. Approximately 6-8 gigabases of raw paired end data of 126-bases were generated per exome library.

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Sickkids policy

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 Shlien Lab, at The Hospital for Sick Children 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: Shlien Lab, at The Hospital for Sick Children 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 Hospital for Sick Children 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. 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) (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 EGA within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify EGA prior to any significant changes to the protocol for the Project. 14. The User Institution will notify EGA as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. EGA 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 EGA. 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 England and Wales and shall be subject to the exclusive jurisdiction of the English 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
EGAF00005188750 1617930006053 2.6 GB
EGAF00005188751 1617929539718 2.6 GB
EGAF00005188752 1617930594215 2.7 GB
EGAF00005188753 1617931605974 2.7 GB
EGAF00005188754 1617927353003 2.0 GB
EGAF00005188755 1617928742205 2.0 GB
EGAF00005188756 1617929040621 2.2 GB
EGAF00005188757 1617930006053 2.2 GB
EGAF00005188758 1617928612240 2.4 GB
EGAF00005188759 1617929040621 2.5 GB
EGAF00005188760 1617930788490 3.0 GB
EGAF00005188761 1617931472191 3.1 GB
EGAF00005188762 1617929539718 2.4 GB
EGAF00005188763 1617929040621 2.5 GB
EGAF00005188764 1617929352700 2.6 GB
EGAF00005188765 1617929190443 2.6 GB
EGAF00005188766 1617931744498 3.4 GB
EGAF00005188767 1617930788490 3.3 GB
EGAF00005188768 1617928101091 2.2 GB
EGAF00005188769 1617928612240 2.1 GB
EGAF00005188770 1617928475541 2.2 GB
EGAF00005188771 1617930594215 2.3 GB
EGAF00005188772 1617929040621 2.4 GB
EGAF00005188773 1617929889132 2.4 GB
EGAF00005188774 1617931025657 3.3 GB
EGAF00005188775 1617930594215 3.3 GB
EGAF00005188776 1617929722737 2.9 GB
EGAF00005188777 1617929722737 2.9 GB
EGAF00005188778 1617929539718 2.6 GB
EGAF00005188779 1617930788490 2.6 GB
EGAF00005188780 1617930594214 2.6 GB
EGAF00005188781 1627251040341 2.6 GB
EGAF00005188782 1617928886221 2.3 GB
EGAF00005188783 1617928475541 2.3 GB
EGAF00005188784 1617931605974 2.7 GB
EGAF00005188785 1627251040342 2.7 GB
EGAF00005188786 1617928886221 2.5 GB
EGAF00005188787 1617929040622 2.5 GB
EGAF00005188788 1617929040621 2.5 GB
EGAF00005188789 1627251040342 2.5 GB
EGAF00005188790 1617928612240 2.3 GB
EGAF00005188791 1617928612240 2.4 GB
EGAF00005188792 1617929040621 2.6 GB
EGAF00005188793 1617929765323 2.5 GB
EGAF00005188794 1617929190443 2.5 GB
EGAF00005188795 1617929352700 2.5 GB
EGAF00005188796 1617929722737 2.5 GB
EGAF00005188797 1617930594214 2.5 GB
EGAF00005188798 1617929040621 2.5 GB
EGAF00005188799 1617930594214 2.5 GB
EGAF00005188800 1617929352700 2.7 GB
EGAF00005188801 1617931632551 2.7 GB
EGAF00005188802 1617928742205 2.0 GB
EGAF00005188803 1627251040341 2.0 GB
EGAF00005188804 1617928886221 2.5 GB
EGAF00005188805 1617930594214 2.5 GB
EGAF00005188806 1617929722737 2.9 GB
EGAF00005188807 1617929722737 2.9 GB
EGAF00005188808 1617930788490 3.6 GB
EGAF00005188809 1617930594214 3.6 GB
EGAF00005188810 1617930917750 2.9 GB
EGAF00005188811 1617929539718 2.8 GB
EGAF00005188812 1617929040622 2.5 GB
EGAF00005188813 1617929539718 2.6 GB
EGAF00005188814 1617929722737 2.8 GB
EGAF00005188815 1617930594214 2.9 GB
EGAF00005188816 1617930594214 3.2 GB
EGAF00005188817 1617930594214 3.3 GB
EGAF00005188818 1617929352700 2.7 GB
EGAF00005188819 1617930788490 2.7 GB
EGAF00005188820 1617927164695 1.9 GB
EGAF00005188821 1617927489202 1.9 GB
EGAF00005188822 1617929352700 2.6 GB
EGAF00005188823 1617931605974 2.7 GB
EGAF00005188824 1617928101091 2.1 GB
EGAF00005188825 1617928475541 2.2 GB
EGAF00005188826 1617929352700 2.4 GB
EGAF00005188827 1617929539718 2.5 GB
EGAF00005188828 1617929722737 2.8 GB
EGAF00005188829 1617930594214 2.8 GB
EGAF00005188830 1617929040621 2.3 GB
EGAF00005188831 1617928742205 2.3 GB
EGAF00005188832 1617929539718 2.6 GB
EGAF00005188833 1617931605974 2.6 GB
EGAF00005188834 1617929352700 2.5 GB
EGAF00005188835 1617930594214 2.5 GB
EGAF00005188836 1617929539718 2.7 GB
EGAF00005188837 1617929722737 2.8 GB
EGAF00005188838 1617929889132 3.2 GB
EGAF00005188839 1617930788490 3.3 GB
EGAF00005188840 1617931119375 2.8 GB
EGAF00005188841 1617931362765 2.9 GB
EGAF00005188842 1617927916509 2.1 GB
EGAF00005188843 1617928290482 2.1 GB
94 Files (244.4 GB)