Need Help?

PBL whole exome and transcriptome data

Plasmablastic lymphoma (PBL) represents a clinically heterogeneous subtype of aggressive B-cell non-Hodgkin lymphoma. Although targeted sequencing studies and a single center whole exome sequencing (WES) study in HIV+ patients recently revealed several genes, associated with PBL pathogenesis, the global mutational landscape and transcriptional profile of PBL remain elusive. To inform on disease-associated mutational drivers, mutational patterns and perturbed pathways in HIV+ and HIV- PBL we performed WES and RNA-sequencing (RNA-seq) of 34 PBL tumors.

Request Access

This policy is adjusted from the Example DAA template at, i.e.

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 PBL Cancer Data 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: PBL Cancer Data Committee and the collaborators listed in Appendix I responsible for the development, organisation, and oversight of these Data. The PBL Cancer Data Committee ( 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. XXXXX: Your Institution details here 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 PBL Cancer Data Committee within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify the PBL Cancer Data Committee prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the PBL Cancer Data Committee as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. The PBL Cancer Data 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 PBL Cancer Data 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 Germany and shall be subject to the exclusive jurisdiction of German 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 XXXXX 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) Name of project that created the dataset Names of other data producers/collaborators Axel Künstner ( Niklas Gebauer ( * Hauke Busch ( * Constitute the Data Access Committee 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 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 PBL Cancer data producers and collaborators named in Appendix I intend to publish the results of their analysis of this dataset in a peer-reviewed journal and do not consider its deposition into public databases to be the equivalent of such publications. The data producers 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 peer-reviewed journal publication of the EGA study unless the PBL Cancer Data 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., EGAS00000000029), and acknowledge its use in a form agreed by the User Institution with the PBL Cancer Data 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
EGAS00001004906 Other
ID File Type Size Located in
EGAF00004953140 fq.gz 3.1 GB
EGAF00004953141 fq.gz 3.2 GB
EGAF00004953142 fq.gz 3.3 GB
EGAF00004953143 fq.gz 3.3 GB
EGAF00004953144 fq.gz 2.8 GB
EGAF00004953145 fq.gz 2.8 GB
EGAF00004953146 fq.gz 7.6 GB
EGAF00004953147 fq.gz 7.6 GB
EGAF00004953148 fq.gz 6.6 GB
EGAF00004953149 fq.gz 6.7 GB
EGAF00004953150 fq.gz 3.4 GB
EGAF00004953151 fq.gz 3.4 GB
EGAF00004953152 fq.gz 6.3 GB
EGAF00004953153 fq.gz 6.4 GB
EGAF00004953154 fq.gz 3.2 GB
EGAF00004953155 fq.gz 3.4 GB
EGAF00004953156 fq.gz 3.3 GB
EGAF00004953157 fq.gz 3.4 GB
EGAF00004953158 fq.gz 8.5 GB
EGAF00004953159 fq.gz 8.5 GB
EGAF00004953160 fq.gz 6.6 GB
EGAF00004953161 fq.gz 6.8 GB
EGAF00004953162 fq.gz 6.0 GB
EGAF00004953163 fq.gz 6.1 GB
EGAF00004953164 fq.gz 3.6 GB
EGAF00004953165 fq.gz 3.6 GB
EGAF00004953166 fq.gz 7.4 GB
EGAF00004953167 fq.gz 7.4 GB
EGAF00004953168 fq.gz 7.3 GB
EGAF00004953169 fq.gz 7.3 GB
EGAF00004953170 fq.gz 8.7 GB
EGAF00004953171 fq.gz 8.9 GB
EGAF00004953172 fq.gz 6.8 GB
EGAF00004953173 fq.gz 6.8 GB
EGAF00004953174 fq.gz 6.5 GB
EGAF00004953175 fq.gz 6.6 GB
EGAF00004953176 fq.gz 5.7 GB
EGAF00004953177 fq.gz 5.7 GB
EGAF00004953178 fq.gz 7.3 GB
EGAF00004953179 fq.gz 7.3 GB
EGAF00004953180 fq.gz 3.5 GB
EGAF00004953181 fq.gz 3.6 GB
EGAF00004953182 fq.gz 3.0 GB
EGAF00004953183 fq.gz 3.1 GB
EGAF00004953184 fq.gz 3.2 GB
EGAF00004953185 fq.gz 3.2 GB
EGAF00004953186 fq.gz 3.6 GB
EGAF00004953187 fq.gz 3.7 GB
EGAF00004953188 fq.gz 2.8 GB
EGAF00004953189 fq.gz 2.9 GB
EGAF00004953190 fq.gz 2.5 GB
EGAF00004953191 fq.gz 2.5 GB
EGAF00004953192 fq.gz 3.7 GB
EGAF00004953193 fq.gz 3.8 GB
EGAF00004953194 fq.gz 3.3 GB
EGAF00004953195 fq.gz 3.3 GB
EGAF00004953196 fq.gz 3.2 GB
EGAF00004953197 fq.gz 3.3 GB
EGAF00004953198 fq.gz 7.3 GB
EGAF00004953199 fq.gz 7.7 GB
EGAF00004953200 fq.gz 6.7 GB
EGAF00004953201 fq.gz 6.8 GB
EGAF00004953202 fq.gz 6.5 GB
EGAF00004953203 fq.gz 6.5 GB
EGAF00004953204 fq.gz 2.8 GB
EGAF00004953205 fq.gz 2.9 GB
EGAF00004953206 fq.gz 9.6 GB
EGAF00004953207 fq.gz 9.8 GB
EGAF00004953208 fq.gz 3.5 GB
EGAF00004953209 fq.gz 3.6 GB
EGAF00004953210 fq.gz 3.3 GB
EGAF00004953211 fq.gz 3.3 GB
EGAF00004953212 fq.gz 3.9 GB
EGAF00004953213 fq.gz 4.0 GB
EGAF00004953214 fq.gz 3.9 GB
EGAF00004953215 fq.gz 3.9 GB
EGAF00004953216 fq.gz 7.6 GB
EGAF00004953217 fq.gz 7.7 GB
EGAF00004953218 fq.gz 3.0 GB
EGAF00004953219 fq.gz 3.1 GB
EGAF00004953220 fq.gz 3.7 GB
EGAF00004953221 fq.gz 3.7 GB
EGAF00004953222 fq.gz 5.9 GB
EGAF00004953223 fq.gz 5.9 GB
EGAF00004953224 fq.gz 7.3 GB
EGAF00004953225 fq.gz 7.4 GB
EGAF00004953226 fq.gz 6.2 GB
EGAF00004953227 fq.gz 6.3 GB
EGAF00004953228 fq.gz 2.8 GB
EGAF00004953229 fq.gz 2.8 GB
EGAF00004953230 fq.gz 3.3 GB
EGAF00004953231 fq.gz 3.4 GB
EGAF00004953232 fq.gz 3.1 GB
EGAF00004953233 fq.gz 3.2 GB
EGAF00004953234 fq.gz 3.5 GB
EGAF00004953235 fq.gz 3.5 GB
EGAF00004953236 fq.gz 2.8 GB
EGAF00004953237 fq.gz 2.8 GB
EGAF00004953238 fq.gz 2.9 GB
EGAF00004953239 fq.gz 2.9 GB
EGAF00004953240 fq.gz 3.2 GB
EGAF00004953241 fq.gz 3.3 GB
EGAF00004953242 fq.gz 2.4 GB
EGAF00004953243 fq.gz 2.4 GB
EGAF00004953244 fq.gz 7.9 GB
EGAF00004953245 fq.gz 8.0 GB
EGAF00004953246 fq.gz 7.3 GB
EGAF00004953247 fq.gz 7.3 GB
EGAF00004953248 fq.gz 7.3 GB
EGAF00004953249 fq.gz 7.4 GB
EGAF00004953250 fq.gz 2.9 GB
EGAF00004953251 fq.gz 2.9 GB
EGAF00004953252 fq.gz 8.5 GB
EGAF00004953253 fq.gz 8.7 GB
EGAF00004953254 fq.gz 8.0 GB
EGAF00004953255 fq.gz 8.2 GB
EGAF00004953256 fq.gz 6.4 GB
EGAF00004953257 fq.gz 6.4 GB
EGAF00004953258 fq.gz 7.4 GB
EGAF00004953259 fq.gz 7.5 GB
EGAF00004953260 fq.gz 6.5 GB
EGAF00004953261 fq.gz 6.6 GB
EGAF00004953262 fq.gz 3.8 GB
EGAF00004953263 fq.gz 3.9 GB
EGAF00004953264 fq.gz 3.3 GB
EGAF00004953265 fq.gz 3.4 GB
EGAF00004953266 fq.gz 2.9 GB
EGAF00004953267 fq.gz 2.9 GB
EGAF00004953268 fq.gz 7.2 GB
EGAF00004953269 fq.gz 7.3 GB
EGAF00004953270 fq.gz 2.8 GB
EGAF00004953271 fq.gz 2.9 GB
EGAF00004953272 fq.gz 6.2 GB
EGAF00004953273 fq.gz 6.2 GB
EGAF00004953274 fq.gz 4.9 GB
EGAF00004953275 fq.gz 5.1 GB
EGAF00004953276 fq.gz 7.8 GB
EGAF00004953277 fq.gz 7.9 GB
EGAF00004953278 fq.gz 2.9 GB
EGAF00004953279 fq.gz 3.0 GB
EGAF00004953280 fq.gz 3.3 GB
EGAF00004953281 fq.gz 3.4 GB
EGAF00004953282 fq.gz 3.1 GB
EGAF00004953283 fq.gz 3.2 GB
EGAF00004953284 fq.gz 3.6 GB
EGAF00004953285 fq.gz 3.7 GB
EGAF00004953286 fq.gz 7.5 GB
EGAF00004953287 fq.gz 7.7 GB
148 Files (744.7 GB)