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Sequencing files for "The Evolutionary Origins of Recurrent Pancreatic Cancer."

Files from DNA sequencing from primary tumors and metastases from pancreatic cancer patients along with matched normal tissues. Sequencing files include those derived from whole exome sequencing as well as MSK-IMPACT sequencing.

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MSKCC Medical Donation Program Data Access 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 the MSKCC Medical Donation Program 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: MSKCC Medical Donation Program Data Access Committee 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. MSKCC Medical Donation Program Data Access Committee: Memorial Sloan Kettering Cancer Center, Medical Donation Program, 1275 York Avenue, New York, NY 10065. 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 the MSKCC Medical Donation Program Data Access Committee within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify the MSKCC Medical Donation Program Data Access Committee prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the MSKCC Medical Donation Program Data Access Committee as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. The MSKCC Medical Donation Program 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 the MSKCC Medical Donation Program 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. 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 the MSKCC Medical Donation Program 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) EGAS00001002186 Name of project that created the dataset Sequencing of pancreatic cancer primary tumors and metastases Names of other data producers/collaborators Alvin P. Makohon-Moore Marc Attiyeh Jungeui Hong Nicholas Socci Kenneth Kinzler Christine Iacobuzio-Donahue Specific limitations on areas of research None. Minimum protection measures required None. 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 The MSKCC Medical Donation Program Data Access Committee intends 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. The MSKCC Medical Donation Program Data Access Committee 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 12 months after these data were first made available on the relevant hosting database, unless the MSKCC Medical Donation Program Data Access Committee 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., EGAS00001002186), and acknowledge its use in a form agreed by the User Institution with the MSKCC Medical Donation Program Data Access Committee.

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
EGAS00001004097 Other
ID File Type Size Located in
EGAF00003248014 bam 4.7 GB
EGAF00003248015 bam 6.2 GB
EGAF00003248016 bam 5.9 GB
EGAF00003248017 bam 7.5 GB
EGAF00003248018 bam 6.7 GB
EGAF00003248019 bam 6.2 GB
EGAF00003248020 bam 5.0 GB
EGAF00003248021 bam 5.2 GB
EGAF00003248022 bam 5.1 GB
EGAF00003248023 bam 5.4 GB
EGAF00003248024 bam 4.7 GB
EGAF00003248025 bam 5.9 GB
EGAF00003248026 bam 5.6 GB
EGAF00003248027 bam 5.7 GB
EGAF00003248028 bam 3.5 GB
EGAF00003248029 bam 3.0 GB
EGAF00003248030 bam 3.9 GB
EGAF00003248031 bam 6.2 GB
EGAF00003248032 bam 6.8 GB
EGAF00003248033 bam 6.0 GB
EGAF00003248034 bam 6.0 GB
EGAF00003248035 bam 5.4 GB
EGAF00003248036 bam 7.9 GB
EGAF00003248037 bam 8.3 GB
EGAF00003248038 bam 6.6 GB
EGAF00003248039 bam 8.7 GB
EGAF00003248040 bam 5.5 GB
EGAF00003248041 bam 6.0 GB
EGAF00003248042 bam 10.3 GB
EGAF00003248043 bam 9.3 GB
EGAF00003248044 bam 10.0 GB
EGAF00003248045 bam 10.3 GB
EGAF00003248046 bam 3.7 GB
EGAF00003248047 bam 6.4 GB
EGAF00003248048 bam 5.9 GB
EGAF00003248049 bam 5.6 GB
EGAF00003248050 bam 5.0 GB
EGAF00003248051 bam 5.2 GB
EGAF00003248052 bam 3.7 GB
EGAF00003248053 bam 5.5 GB
EGAF00003248054 bam 4.9 GB
EGAF00003248055 bam 5.0 GB
EGAF00003248056 bam 5.1 GB
EGAF00003248057 bam 4.3 GB
EGAF00003248058 bam 4.7 GB
EGAF00003248059 bam 5.5 GB
EGAF00003248060 bam 6.0 GB
EGAF00003248061 bam 4.2 GB
EGAF00003248062 bam 5.0 GB
EGAF00003248063 bam 4.2 GB
EGAF00003248064 bam 3.6 GB
EGAF00003248065 bam 3.1 GB
EGAF00003248066 bam 3.2 GB
EGAF00003248067 bam 3.4 GB
EGAF00003248068 bam 17.0 GB
EGAF00003248069 bam 44.8 GB
EGAF00003248070 bam 39.8 GB
EGAF00003248071 bam 31.3 GB
EGAF00003248072 bam 33.1 GB
EGAF00003248073 bam 40.2 GB
EGAF00003248074 bam 13.1 GB
EGAF00003248075 bam 36.6 GB
EGAF00003248076 bam 32.1 GB
EGAF00003248077 bam 24.5 GB
EGAF00003248078 bam 24.3 GB
EGAF00003248079 bam 15.7 GB
EGAF00003248080 bam 32.9 GB
EGAF00003248081 bam 41.9 GB
EGAF00003248082 bam 35.1 GB
EGAF00003248083 bam 35.2 GB
EGAF00003248084 bam 50.9 GB
EGAF00003248085 bam 34.9 GB
EGAF00003248086 bam 44.8 GB
EGAF00003248087 bam 47.4 GB
EGAF00003248088 bam 34.6 GB
EGAF00003248089 bam 14.6 GB
EGAF00003248090 bam 38.4 GB
EGAF00003248091 bam 41.4 GB
EGAF00003248092 bam 30.3 GB
EGAF00003248093 bam 41.7 GB
EGAF00003248094 bam 44.1 GB
EGAF00003248095 bam 33.1 GB
EGAF00003248096 bam 39.9 GB
EGAF00003248097 bam 40.9 GB
EGAF00003248098 bam 14.8 GB
EGAF00003248099 bam 36.5 GB
EGAF00003248100 bam 30.9 GB
EGAF00003248101 bam 31.3 GB
EGAF00003248102 bam 29.7 GB
EGAF00003248103 bam 39.4 GB
EGAF00003248104 bam 34.9 GB
EGAF00003248105 bam 41.9 GB
EGAF00003248106 bam 39.1 GB
EGAF00003248107 bam 52.4 GB
EGAF00003248108 bam 42.3 GB
EGAF00003248109 bam 40.2 GB
EGAF00003248110 bam 14.0 GB
EGAF00003248111 bam 33.1 GB
EGAF00003248112 bam 38.1 GB
EGAF00003248113 bam 29.1 GB
EGAF00003248114 bam 34.7 GB
EGAF00003248115 bam 41.9 GB
EGAF00003248116 bam 38.6 GB
EGAF00003248117 bam 17.0 GB
EGAF00003248118 bam 40.5 GB
EGAF00003248119 bam 28.5 GB
EGAF00003248120 bam 34.6 GB
EGAF00003248121 bam 38.1 GB
EGAF00003248122 bam 31.3 GB
EGAF00003248123 bam 40.7 GB
EGAF00003248124 bam 14.8 GB
EGAF00003248125 bam 28.8 GB
EGAF00003248126 bam 41.3 GB
EGAF00003248127 bam 31.4 GB
EGAF00003248128 bam 35.7 GB
EGAF00003248129 bam 39.4 GB
EGAF00003248130 bam 16.2 GB
EGAF00003248131 bam 42.7 GB
EGAF00003248132 bam 47.1 GB
EGAF00003248133 bam 35.7 GB
EGAF00003248134 bam 44.0 GB
EGAF00003248135 bam 48.6 GB
EGAF00003248136 bam 38.5 GB
EGAF00003248137 bam 30.3 GB
EGAF00003248138 bam 48.1 GB
EGAF00003248139 bam 19.4 GB
EGAF00003248140 bam 40.3 GB
EGAF00003248141 bam 39.0 GB
EGAF00003248142 bam 28.4 GB
EGAF00003248143 bam 38.4 GB
EGAF00003248144 bam 83.1 GB
EGAF00003248145 bam 43.2 GB
EGAF00003248146 bam 32.3 GB
EGAF00003248147 bam 40.1 GB
EGAF00003248148 bam 46.0 GB
EGAF00003248149 bam 6.4 GB
EGAF00003248150 bam 11.2 GB
EGAF00003248151 bam 2.7 GB
EGAF00003248152 bam 6.4 GB
EGAF00003248153 bam 6.1 GB
EGAF00003248154 bam 5.8 GB
EGAF00003248155 bam 3.8 GB
EGAF00003248156 bam 6.9 GB
EGAF00003248157 bam 6.8 GB
EGAF00003248158 bam 7.0 GB
EGAF00003248159 bam 3.7 GB
EGAF00003248160 bam 4.9 GB
147 Files (3.3 TB)