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Genomic and Transcriptomic sequencing of neuroblastoma patient

Genomic and Transcriptomic single-cell sequencing of neuroblastoma patient. Data represents one 96-well plate that was processed with G&T sequencing, resulting in genomic and transcriptomic data from the same single cells. Dataset contains 95 bam files containing the DNA sequencing data and 95 bam files containing the RNA sequencing data.

Request Access

Data access agreement to access Berlin neuroblastoma single-cell cohort

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 Neuroblastoma single-cell 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 Neuroblastoma single-cell 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 Neuroblastoma single-cell 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. 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 Berlin Neuroblastoma single-cell DAC Signature: Name: Title: Date: APPENDIX I – DATASET DETAILS APPENDIX II ––PROJECT DETAILS APPENDIX I – DATASET DETAILS (to be completed by the data producer before passing to applicant) Dataset reference (EGA Study ID and Dataset Details) Name of project that created the dataset Names of other data producers/collaborators Specific limitations on areas of research Minimum protection measures required 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 screen locks (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

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
EGAS50000000509 Cancer Genomics

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
EGAF50000172988 bam 566.7 MB
EGAF50000172989 bam 438.4 MB
EGAF50000172990 bam 534.5 MB
EGAF50000172991 bam 396.4 MB
EGAF50000172992 bam 615.4 MB
EGAF50000172993 bam 440.7 MB
EGAF50000172994 bam 493.7 MB
EGAF50000172995 bam 467.2 MB
EGAF50000172996 bam 363.5 MB
EGAF50000172997 bam 434.5 MB
EGAF50000172998 bam 528.0 MB
EGAF50000172999 bam 387.2 MB
EGAF50000173000 bam 730.9 MB
EGAF50000173001 bam 639.6 MB
EGAF50000173002 bam 627.6 MB
EGAF50000173003 bam 537.3 MB
EGAF50000173004 bam 442.2 MB
EGAF50000173005 bam 717.7 MB
EGAF50000173006 bam 534.8 MB
EGAF50000173007 bam 560.0 MB
EGAF50000173008 bam 602.0 MB
EGAF50000173009 bam 447.0 MB
EGAF50000173010 bam 405.9 MB
EGAF50000173011 bam 675.2 MB
EGAF50000173012 bam 717.7 MB
EGAF50000173013 bam 495.0 MB
EGAF50000173014 bam 498.8 MB
EGAF50000173015 bam 555.4 MB
EGAF50000173016 bam 540.7 MB
EGAF50000173017 bam 576.9 MB
EGAF50000173018 bam 508.6 MB
EGAF50000173019 bam 948.1 MB
EGAF50000173020 bam 600.0 MB
EGAF50000173021 bam 780.5 MB
EGAF50000173022 bam 524.0 MB
EGAF50000173023 bam 545.2 MB
EGAF50000173024 bam 470.5 MB
EGAF50000173025 bam 498.3 MB
EGAF50000173026 bam 522.2 MB
EGAF50000173027 bam 698.5 MB
EGAF50000173028 bam 573.5 MB
EGAF50000173029 bam 739.3 MB
EGAF50000173030 bam 1.2 GB
EGAF50000173031 bam 560.5 MB
EGAF50000173032 bam 695.8 MB
EGAF50000173033 bam 368.1 MB
EGAF50000173034 bam 952.4 MB
EGAF50000173035 bam 488.4 MB
EGAF50000173036 bam 638.6 MB
EGAF50000173037 bam 617.5 MB
EGAF50000173038 bam 534.1 MB
EGAF50000173039 bam 544.5 MB
EGAF50000173040 bam 445.1 MB
EGAF50000173041 bam 703.6 MB
EGAF50000173042 bam 544.8 MB
EGAF50000173043 bam 663.8 MB
EGAF50000173044 bam 471.4 MB
EGAF50000173045 bam 503.1 MB
EGAF50000173046 bam 608.7 MB
EGAF50000173047 bam 442.9 MB
EGAF50000173048 bam 475.9 MB
EGAF50000173049 bam 516.1 MB
EGAF50000173050 bam 539.3 MB
EGAF50000173051 bam 474.6 MB
EGAF50000173052 bam 471.3 MB
EGAF50000173053 bam 570.3 MB
EGAF50000173054 bam 508.0 MB
EGAF50000173055 bam 529.0 MB
EGAF50000173056 bam 550.4 MB
EGAF50000173057 bam 424.0 MB
EGAF50000173058 bam 491.2 MB
EGAF50000173059 bam 738.1 MB
EGAF50000173060 bam 733.4 MB
EGAF50000173061 bam 554.1 MB
EGAF50000173062 bam 4.3 GB
EGAF50000173063 bam 394.8 MB
EGAF50000173064 bam 339.2 MB
EGAF50000173065 bam 696.9 MB
EGAF50000173066 bam 630.3 MB
EGAF50000173067 bam 727.2 MB
EGAF50000173068 bam 561.8 MB
EGAF50000173069 bam 580.7 MB
EGAF50000173070 bam 498.4 MB
EGAF50000173071 bam 671.1 MB
EGAF50000173072 bam 652.5 MB
EGAF50000173073 bam 596.6 MB
EGAF50000173074 bam 5.0 GB
EGAF50000173075 bam 392.0 MB
EGAF50000173076 bam 609.9 MB
EGAF50000173077 bam 476.5 MB
EGAF50000173078 bam 474.0 MB
EGAF50000173079 bam 410.4 MB
EGAF50000173080 bam 436.3 MB
EGAF50000173081 bam 583.3 MB
EGAF50000173082 bam 680.2 MB
EGAF50000173083 bam 157.6 MB
EGAF50000173084 bam 144.2 MB
EGAF50000173085 bam 137.0 MB
EGAF50000173086 bam 161.7 MB
EGAF50000173087 bam 192.7 MB
EGAF50000173088 bam 150.7 MB
EGAF50000173089 bam 166.5 MB
EGAF50000173090 bam 170.5 MB
EGAF50000173091 bam 150.1 MB
EGAF50000173092 bam 148.8 MB
EGAF50000173093 bam 162.4 MB
EGAF50000173094 bam 112.0 MB
EGAF50000173095 bam 146.6 MB
EGAF50000173096 bam 225.6 MB
EGAF50000173097 bam 187.2 MB
EGAF50000173098 bam 169.2 MB
EGAF50000173099 bam 149.2 MB
EGAF50000173100 bam 181.8 MB
EGAF50000173101 bam 182.4 MB
EGAF50000173102 bam 162.4 MB
EGAF50000173103 bam 172.1 MB
EGAF50000173104 bam 133.1 MB
EGAF50000173105 bam 145.8 MB
EGAF50000173106 bam 137.0 MB
EGAF50000173107 bam 174.3 MB
EGAF50000173108 bam 195.0 MB
EGAF50000173109 bam 133.7 MB
EGAF50000173110 bam 232.1 MB
EGAF50000173111 bam 200.1 MB
EGAF50000173112 bam 213.6 MB
EGAF50000173113 bam 189.2 MB
EGAF50000173114 bam 189.5 MB
EGAF50000173115 bam 171.2 MB
EGAF50000173116 bam 195.0 MB
EGAF50000173117 bam 158.0 MB
EGAF50000173118 bam 150.7 MB
EGAF50000173119 bam 157.2 MB
EGAF50000173120 bam 158.5 MB
EGAF50000173121 bam 169.1 MB
EGAF50000173122 bam 158.8 MB
EGAF50000173123 bam 190.5 MB
EGAF50000173124 bam 218.5 MB
EGAF50000173125 bam 207.2 MB
EGAF50000173126 bam 158.8 MB
EGAF50000173127 bam 147.4 MB
EGAF50000173128 bam 136.8 MB
EGAF50000173129 bam 201.1 MB
EGAF50000173130 bam 197.2 MB
EGAF50000173131 bam 178.3 MB
EGAF50000173132 bam 162.4 MB
EGAF50000173133 bam 103.8 MB
EGAF50000173134 bam 199.0 MB
EGAF50000173135 bam 147.2 MB
EGAF50000173136 bam 147.7 MB
EGAF50000173137 bam 198.3 MB
EGAF50000173138 bam 195.8 MB
EGAF50000173139 bam 170.1 MB
EGAF50000173140 bam 174.2 MB
EGAF50000173141 bam 178.8 MB
EGAF50000173142 bam 162.5 MB
EGAF50000173143 bam 182.8 MB
EGAF50000173144 bam 188.8 MB
EGAF50000173145 bam 118.2 MB
EGAF50000173146 bam 216.8 MB
EGAF50000173147 bam 202.3 MB
EGAF50000173148 bam 164.6 MB
EGAF50000173149 bam 329.7 MB
EGAF50000173150 bam 190.8 MB
EGAF50000173151 bam 182.7 MB
EGAF50000173152 bam 171.0 MB
EGAF50000173153 bam 156.3 MB
EGAF50000173154 bam 207.2 MB
EGAF50000173155 bam 242.6 MB
EGAF50000173156 bam 152.2 MB
EGAF50000173157 bam 920.1 MB
EGAF50000173158 bam 147.8 MB
EGAF50000173159 bam 125.2 MB
EGAF50000173160 bam 240.1 MB
EGAF50000173161 bam 260.4 MB
EGAF50000173162 bam 197.6 MB
EGAF50000173163 bam 131.1 MB
EGAF50000173164 bam 169.5 MB
EGAF50000173165 bam 170.8 MB
EGAF50000173166 bam 203.2 MB
EGAF50000173167 bam 188.1 MB
EGAF50000173168 bam 200.5 MB
EGAF50000173169 bam 425.5 MB
EGAF50000173170 bam 125.4 MB
EGAF50000173171 bam 174.3 MB
EGAF50000173172 bam 339.5 MB
EGAF50000173173 bam 181.2 MB
EGAF50000173174 bam 146.3 MB
EGAF50000173175 bam 310.8 MB
EGAF50000173176 bam 180.4 MB
EGAF50000173177 bam 181.4 MB
190 Files (79.5 GB)