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Exome-sequencing of human B cell lymphoma cell lines

26 cell lines derived from human Diffuse Large B Cell lymphomas (DLBCL) or Burkit Lymphomas (BL) were subjected to whole exome sequencing. Exome capture was carried out using the SeqCap EZ Exome Library 2.0 kit (Roche/Nimblegen) and 100 bp single-read sequencing was performed on a HiSeq2500 (Illumina). 82% of the coding region was covered at least 30x.

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SAHA-ZIM Data Access Policy

SAHA-ZIM CONSORTIUM DATA ACCESS AGREEMENT This agreement governs the terms on which access will be granted through the Data Access Committee (DAC) to SAHA-ZIM Consortium data available in the European Genome-phenome Archive (EGA) by the European Bioinformatics Institute, the UK Outstation of the European Molecular Biology Laboratory for and mandated by the members of the SAHA-ZIM Consortium. In signing this agreement, you are agreeing to be bound by the terms and conditions of access set out in this agreement. For the sake of clarity, the terms of access set out in this agreement apply both to the user and the user’s institution (as defined below). User institution and user are referred to within the agreement as “You” and “Your” shall be construed accordingly. Definitions: SAHA-ZIM DAC means the SAHA-ZIM Data Access Committee appointed by the SAHA-ZIM Consortium to manage access to all data submitted by the SAHA-ZIM Consortium to the EGA SAHA-ZIM Consortium means the consortium of reseachers which under take the project titled “A novel approach to detect resistance mechanisms reveals FGR as a factor mediating HDAC inhibitor SAHA resistance in B-cell lymphoma“, which was supported by a grant from the “Zentrales Innovationsprojekt Mittelstand” (KF2766404CS2; KF2077503CS2; KF2986901CS2). EGA means the European Genome-phenome Archive, a permanent archive of controlled access data generated for biomedical research and deposited to enable data sharing. The EGA is described on the website http://www.ebi.ac.ukl/ega. Data means all and any human genetic or phenotype data obtained from the EGA. Data Subject means a person, who has been informed of the purpose for which the data is held and has given his/her informed consent thereto. User means a researcher whose user institution has previously completed this Data Access Agreement and has received acknowledgement of its acceptance. Publications means, without limitation, articles published in print journals, electronic journals, reviews, books, posters and other written and verbal presentations of research. User Institution means the organisation at which the user is employed, affiliated or enrolled. Terms and Conditions: In signing this agreement: 1. You agree to use the data only for the advancement of medical research, according to the consent obtained from sample donors. 2. You agree to preserve, at all times, the confidentiality of information and data pertaining to data subjects. In particular, you undertake not to use, or attempt to use the data to compromise or otherwise infringe the confidentiality of information on data subjects and their right to privacy. 3. You agree not to attempt to link the data provided under this agreement to other information or archive data available for the data sets provided, even if access to that data has been formally granted to you, or it is freely available without restriction, without specific permission being sought from the relevant access committees. 4. You agree not to transfer or disclose the data, in whole or part, or any identifiable material derived from the data, to others, except as necessary for data/safety monitoring or programme management. Should you wish to share the data with a collaborator outwith the same Institution, the third party must make a separate application for access to the data. 5. You agree to use the data for the approved purpose and project described in your application; use of the data for a new purpose or project will require a new application and approval. 6. You accept that data will be updated from time to time, with suitable versioning. If the reissue is at the request of sample donors and/or other ethical scrutiny, you will destroy earlier versions of the Data. 7. You accept that the SAHA-ZIM DAC, the SAHA-ZIM Consortium, or the funders of the data or any part of the data supplied: a) bear no legal responsibility for the accuracy or comprehensiveness of the data; and b) accept no liability for indirect, consequential, or incidental, damages or losses arising from use of the data, or from the unavailability of, or break in access to, the data for whatever reason. 8. You understand and acknowledge that the data may be protected by copyright and other intellectual property rights, and that duplication, except as reasonably required to carry out your research with the data, or sale of all or part of the data on any media may not be permitted. Users of the data are solely responsible for establishing the nature of and complying with any such intellectual property restrictions. 9. You recognise that nothing in this agreement shall operate to transfer to the user institution any intellectual property rights relating to the data. The user institution has the right to develop intellectual property based on comparisons with their own data. 10. You accept that this agreement will terminate immediately upon any breach of this agreement by you and you will be required to destroy any data held. 11. You accept that it may be necessary for the SAHA-ZIM Consortium or its appointed agent to alter the terms of this agreement from time to time in order to address new concerns. In this event, the EGA or its appointed agent will contact you to inform you of any changes and you agree that your continued use of the data shall be dependent on the parties entering into a new version of the agreement. 12. You agree that you will submit a report to the SAHA-ZIM DAC, if requested, on completion of the agreed purpose. The SAHA-ZIM DAC agrees to treat the report and all information, data, results, and conclusions contained within such report as confidential information belonging to the User Institution. 13. You accept that the data may be protected by and subject to international laws, including but not limited to applicable laws on the protection of personal data, and that you are responsible for ensuring compliance with any such applicable law. You undertake to implement or have implemented adequate technical and organisational security measures to protect data. The SAHA-ZIM DAC reserves the right to request and inspect data security and management documentation to ensure the adequacy of data protection measures, particularly in countries that have no national laws comparable to those which pertain in the EEA. For and on behalf of User: Name of Applicant(s): _____________________________________ _____________________________________ _____________________________________ _____________________________________ Signature of Applicant(s): _____________________________________ _____________________________________ _____________________________________ _____________________________________ Date: _____________________________________ For and on behalf of User Institution: Signature of Institutional or Administrative Authority: ______________________________________ Print name: ______________________________________ User Institution: ______________________________________ Date: ¬¬¬¬¬¬¬¬¬¬¬¬¬¬¬¬¬¬¬______________________________________ WHEN SUBMITTING THIS DOCUMENT, PLEASE INCLUDE ALL PAGES OF THE AGREEMENT WITH THIS SIGNATURE PAGE APPENDIX 1 Publications Policy Authors who use data from the project must cite the following article: Joosten, M., et al., A novel approach to detect resistance mechanisms reveals FGR as a factor mediating HDAC inhibitor SAHA resistance in B-cell lymphoma, Molecular Oncology (2016), http://dx.doi.org/10.1016/j.molonc.2016.06.001 Users should note that the SAHA-ZIM Consortium bears no responsibility for the further analysis or interpretation of these data, over and above that published by the Consortium.

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
EGAS00001001463 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
EGAF00001234740 bam 9.3 GB
EGAF00001234741 bam 10.6 GB
EGAF00001234742 bam 9.8 GB
EGAF00001234743 bam 9.9 GB
EGAF00001234744 bam 14.8 GB
EGAF00001234745 bam 10.4 GB
EGAF00001234746 bam 12.2 GB
EGAF00001234747 bam 16.3 GB
EGAF00001234748 bam 9.7 GB
EGAF00001234749 bam 8.8 GB
EGAF00001234750 bam 9.7 GB
EGAF00001234751 bam 10.0 GB
EGAF00001234752 bam 11.2 GB
EGAF00001234753 bam 10.9 GB
EGAF00001234754 bam 10.8 GB
EGAF00001234755 bam 13.3 GB
EGAF00001234756 bam 10.9 GB
EGAF00001234757 bam 4.6 GB
EGAF00001234758 bam 11.4 GB
EGAF00001234759 bam 12.2 GB
EGAF00001234760 bam 3.0 GB
EGAF00001234761 bam 10.3 GB
EGAF00001234762 bam 4.4 GB
EGAF00001234763 bam 9.3 GB
EGAF00001234764 bam 10.0 GB
EGAF00001234765 bam 2.6 GB
26 Files (256.6 GB)