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Berlin Pediatric Sarcoma PDX Whole Exome Sequencing dataset

Fastq files of 18 pediatric sarcoma PDX WXS samples. Each sample was sequenced on 2 Lanes.

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Data access agreement to access sequencing data from the Berlin Pediatric Sarcoma PDX DAC

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 Berlin Pediatric Sarcoma PDX DAC (Prof. Dr. Henssen) 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: Prof. Dr. Henssen and the collaborators listed in Appendix I responsible for the development, organization, 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. DAC: Berlin Pediatric Sarcoma PDX DAC Prof. Dr. Henssen: Department of Pediatric Oncology, Charité Universitätsmedizin Berlin, Augustenburger Platz 1, 13353 Berlin 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 recognizing 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 following Publication Policy: 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., EGAS00000000029), and acknowledge its use in a form agreed by the User Institution with the Berlin Pediatric Sarcoma PDX DAC. 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 DAC within 30 days of any changes or departures of Authorized Personnel. 13. The User Institution will notify the DAC prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the DAC as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. The DAC 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 Prof. Dr. Henssen. 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 Authorized Personnel. The User Institution will procure that the Authorized 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 the Federal Republic of Germany.

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
EGAS50000000048 Exome Sequencing

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
EGAF50000051061 fastq.gz 0 Bytes
EGAF50000051062 fastq.gz 2.4 GB
EGAF50000051063 fastq.gz 2.2 GB
EGAF50000051064 fastq.gz 2.3 GB
EGAF50000051065 fastq.gz 2.0 GB
EGAF50000051066 fastq.gz 2.1 GB
EGAF50000051067 fastq.gz 2.0 GB
EGAF50000051068 fastq.gz 2.0 GB
EGAF50000051069 fastq.gz 1.8 GB
EGAF50000051070 fastq.gz 1.8 GB
EGAF50000051071 fastq.gz 1.9 GB
EGAF50000051072 fastq.gz 1.9 GB
EGAF50000051073 fastq.gz 1.6 GB
EGAF50000051074 fastq.gz 1.6 GB
EGAF50000051075 fastq.gz 1.5 GB
EGAF50000051076 fastq.gz 1.6 GB
EGAF50000051077 fastq.gz 1.9 GB
EGAF50000051078 fastq.gz 2.0 GB
EGAF50000051079 fastq.gz 1.8 GB
EGAF50000051080 fastq.gz 1.9 GB
EGAF50000051081 fastq.gz 1.9 GB
EGAF50000051082 fastq.gz 2.0 GB
EGAF50000051083 fastq.gz 1.9 GB
EGAF50000051084 fastq.gz 1.9 GB
EGAF50000051085 fastq.gz 1.3 GB
EGAF50000051086 fastq.gz 1.4 GB
EGAF50000051087 fastq.gz 1.3 GB
EGAF50000051088 fastq.gz 1.4 GB
EGAF50000051089 fastq.gz 1.9 GB
EGAF50000051090 fastq.gz 2.0 GB
EGAF50000051091 fastq.gz 1.8 GB
EGAF50000051092 fastq.gz 1.9 GB
EGAF50000051093 fastq.gz 2.1 GB
EGAF50000051094 fastq.gz 2.0 GB
EGAF50000051095 fastq.gz 2.0 GB
EGAF50000051096 fastq.gz 2.0 GB
EGAF50000051097 fastq.gz 1.7 GB
EGAF50000051098 fastq.gz 1.7 GB
EGAF50000051099 fastq.gz 1.6 GB
EGAF50000051100 fastq.gz 1.6 GB
EGAF50000051101 fastq.gz 1.8 GB
EGAF50000051102 fastq.gz 1.9 GB
EGAF50000051103 fastq.gz 1.7 GB
EGAF50000051104 fastq.gz 1.8 GB
EGAF50000051105 fastq.gz 2.2 GB
EGAF50000051106 fastq.gz 2.2 GB
EGAF50000051107 fastq.gz 2.1 GB
EGAF50000051108 fastq.gz 1.9 GB
EGAF50000051109 fastq.gz 2.1 GB
EGAF50000051110 fastq.gz 2.0 GB
EGAF50000051111 fastq.gz 1.9 GB
EGAF50000051112 fastq.gz 2.0 GB
EGAF50000051113 fastq.gz 2.2 GB
EGAF50000051114 fastq.gz 2.3 GB
EGAF50000051115 fastq.gz 2.2 GB
EGAF50000051116 fastq.gz 2.2 GB
EGAF50000051117 fastq.gz 2.0 GB
EGAF50000051118 fastq.gz 2.1 GB
EGAF50000051119 fastq.gz 2.0 GB
EGAF50000051120 fastq.gz 2.1 GB
EGAF50000051121 fastq.gz 1.9 GB
EGAF50000051122 fastq.gz 2.0 GB
EGAF50000051123 fastq.gz 1.8 GB
EGAF50000051124 fastq.gz 1.9 GB
EGAF50000051125 fastq.gz 2.1 GB
EGAF50000051126 fastq.gz 2.2 GB
EGAF50000051127 fastq.gz 826.5 MB
EGAF50000051128 fastq.gz 1.4 GB
EGAF50000051129 fastq.gz 1.4 GB
EGAF50000051130 fastq.gz 1.4 GB
EGAF50000051131 fastq.gz 1.3 GB
EGAF50000051132 fastq.gz 1.4 GB
72 Files (131.7 GB)