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Characterization of four subtypes in morphologically normal tissue excised proximal and distal to breast cancer

RNA sequencing data from breast cancers (n=18) and their matched HN tissues (n=36), healthy breast from cosmetic reduction mammoplasty (RM; n=5), and risk reducing mastectomies (RR, n=5), with peritumoral samples excised proximal to (TP, less than 2 cm) and distal from (TD, 5-10 cm) the primary tumor.

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Data Access Agreement for the Spatial Characterization of Breast Cancer Dataset

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 “Consortium” refers to the Spatial Characterization Breast Cancer Consortium. Authorised Personnel: The individuals at the User Institution to whom Spatial Cancerization Breast Cancer DAC 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: The Consortium 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. Spatial Cancerization Breast Cancer DAC: Centre for Cancer Biomarkers and Biotherapeutics, Barts Cancer Institute, Queen Mary University of London, London EC1M 6BE 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 the Consortium within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify the Consortium prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the Consortium as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. The Consortium 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. 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. 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 Spatial Cancerization Breast Cancer DAC Signature: Name: Title: Date: APPENDIX I – DATASET DETAILS APPENDIX II ––PROJECT DETAILS APPENDIX III –– PUBLICATION POLICY

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
EGAS00001004510 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
EGAF00004175896 bam 12.2 GB
EGAF00004175901 bam 12.4 GB
EGAF00004175908 bam 19.4 GB
EGAF00004175910 bam 13.4 GB
EGAF00004175911 bam 12.2 GB
EGAF00004175912 bam 11.0 GB
EGAF00004175913 bam 13.1 GB
EGAF00004175914 bam 11.4 GB
EGAF00004175915 bam 7.0 GB
EGAF00004175916 bam 13.1 GB
EGAF00004175917 bam 19.0 GB
EGAF00004175918 bam 22.6 GB
EGAF00004175919 bam 11.0 GB
EGAF00004175920 bam 10.8 GB
EGAF00004175921 bam 11.1 GB
EGAF00004175922 bam 13.6 GB
EGAF00004175923 bam 13.3 GB
EGAF00004175924 bam 12.0 GB
EGAF00004175925 bam 11.4 GB
EGAF00004175926 bam 12.1 GB
EGAF00004175927 bam 12.3 GB
EGAF00004175928 bam 11.8 GB
EGAF00004175929 bam 14.5 GB
EGAF00004175930 bam 17.5 GB
EGAF00004175931 bam 10.8 GB
EGAF00004175932 bam 14.1 GB
EGAF00004175933 bam 19.7 GB
EGAF00004175934 bam 12.4 GB
EGAF00004175935 bam 11.4 GB
EGAF00004175936 bam 11.9 GB
EGAF00004175937 bam 5.3 GB
EGAF00004175938 bam 5.5 GB
EGAF00004175939 bam 10.1 GB
EGAF00004175940 bam 12.8 GB
EGAF00004175941 bam 11.0 GB
EGAF00004175942 bam 13.7 GB
EGAF00004175943 bam 12.9 GB
EGAF00004175944 bam 12.8 GB
EGAF00004175945 bam 11.4 GB
EGAF00004175946 bam 6.3 GB
EGAF00004175947 bam 11.4 GB
EGAF00004175948 bam 11.3 GB
EGAF00004175949 bam 11.5 GB
EGAF00004175950 bam 11.3 GB
EGAF00004175951 bam 6.3 GB
EGAF00004175952 bam 5.3 GB
EGAF00004175953 bam 4.3 GB
EGAF00004175954 bam 11.6 GB
EGAF00004175955 bam 11.2 GB
EGAF00004175956 bam 12.4 GB
EGAF00004175957 bam 12.7 GB
EGAF00004175958 bam 14.5 GB
EGAF00004175959 bam 12.5 GB
EGAF00004175960 bam 12.3 GB
EGAF00004175961 bam 12.4 GB
EGAF00004175962 bam 10.2 GB
EGAF00004175963 bam 11.5 GB
EGAF00004175964 bam 10.8 GB
EGAF00004175965 bam 13.6 GB
EGAF00004175966 bam 11.8 GB
EGAF00004175967 bam 11.6 GB
EGAF00004175968 bam 12.4 GB
EGAF00004175969 bam 11.6 GB
EGAF00004175970 bam 11.1 GB
EGAF00004175971 bam 12.1 GB
EGAF00004175972 bam 17.2 GB
66 Files (795.2 GB)