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RNA Sequencing of paediatric patients with B lymphoblastic leukemia

RNA sequencing was performed on 54 bone marrow samples at diagnosis of paediatric patients with B lymphoblastic leukemia.

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RNA-Seq 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 National University of Singapore 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: National University of Singapore 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. 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 User and/or the User Institution that may arise (whether directly or indirectly) in any way whatsoever from the User’s and/or User Institutions’ 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 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 the 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 the 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 National University of Singapore within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify National University of Singapore prior to any significant changes to the protocol for the Project. 14. The User Institution will notify National University of Singapore as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. National University of Singapore may terminate this agreement immediately 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 National University of Singapore. 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 Singapore and shall be subject to the exclusive jurisdiction of the courts in Singapore. APPENDIX I – DATASET DETAILS 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 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 National University of Singapore intend 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. National University of Singapore 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 24 months after these data were first made available on the relevant hosting database, unless National University of Singapore 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 National University of Singapore.

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
EGAS00001003726 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
EGAF00002495323 fastq.gz 14.7 GB
EGAF00002495324 fastq.gz 14.5 GB
EGAF00002495325 fastq.gz 4.4 GB
EGAF00002495326 fastq.gz 4.5 GB
EGAF00002495327 fastq.gz 6.4 GB
EGAF00002495328 fastq.gz 6.4 GB
EGAF00002495329 fastq.gz 6.0 GB
EGAF00002495330 fastq.gz 5.9 GB
EGAF00002495331 fastq.gz 6.3 GB
EGAF00002495332 fastq.gz 6.1 GB
EGAF00002495333 fastq.gz 3.5 GB
EGAF00002495334 fastq.gz 3.6 GB
EGAF00002495335 fastq.gz 5.8 GB
EGAF00002495336 fastq.gz 5.9 GB
EGAF00002495337 fastq.gz 5.5 GB
EGAF00002495338 fastq.gz 5.6 GB
EGAF00002495339 fastq.gz 7.6 GB
EGAF00002495340 fastq.gz 7.9 GB
EGAF00002495341 fastq.gz 4.1 GB
EGAF00002495342 fastq.gz 4.4 GB
EGAF00002495343 fastq.gz 6.2 GB
EGAF00002495344 fastq.gz 6.4 GB
EGAF00002495345 fastq.gz 3.0 GB
EGAF00002495346 fastq.gz 3.1 GB
EGAF00002495347 fastq.gz 6.0 GB
EGAF00002495348 fastq.gz 6.1 GB
EGAF00002495349 fastq.gz 4.8 GB
EGAF00002495350 fastq.gz 5.1 GB
EGAF00002495351 fastq.gz 5.8 GB
EGAF00002495352 fastq.gz 5.9 GB
EGAF00002495353 fastq.gz 3.2 GB
EGAF00002495354 fastq.gz 3.2 GB
EGAF00002495355 fastq.gz 5.2 GB
EGAF00002495356 fastq.gz 5.3 GB
EGAF00002495357 fastq.gz 4.5 GB
EGAF00002495358 fastq.gz 4.6 GB
EGAF00002495359 fastq.gz 4.4 GB
EGAF00002495360 fastq.gz 4.5 GB
EGAF00002495361 fastq.gz 5.4 GB
EGAF00002495362 fastq.gz 5.5 GB
EGAF00002495363 fastq.gz 4.8 GB
EGAF00002495364 fastq.gz 4.9 GB
EGAF00002495365 fastq.gz 3.9 GB
EGAF00002495366 fastq.gz 4.0 GB
EGAF00002495367 fastq.gz 3.6 GB
EGAF00002495368 fastq.gz 3.7 GB
EGAF00002495369 fastq.gz 4.7 GB
EGAF00002495370 fastq.gz 4.8 GB
EGAF00002495371 fastq.gz 4.7 GB
EGAF00002495372 fastq.gz 4.9 GB
EGAF00002495373 fastq.gz 4.2 GB
EGAF00002495374 fastq.gz 4.3 GB
EGAF00002495375 fastq.gz 4.4 GB
EGAF00002495376 fastq.gz 4.5 GB
EGAF00002495377 fastq.gz 4.7 GB
EGAF00002495378 fastq.gz 4.9 GB
EGAF00002495379 fastq.gz 4.3 GB
EGAF00002495380 fastq.gz 4.4 GB
EGAF00002495381 fastq.gz 6.6 GB
EGAF00002495382 fastq.gz 7.0 GB
EGAF00002495383 fastq.gz 5.8 GB
EGAF00002495384 fastq.gz 5.9 GB
EGAF00002495385 fastq.gz 4.1 GB
EGAF00002495386 fastq.gz 4.4 GB
EGAF00002495387 fastq.gz 5.1 GB
EGAF00002495388 fastq.gz 5.5 GB
EGAF00002495389 fastq.gz 4.5 GB
EGAF00002495390 fastq.gz 4.8 GB
EGAF00002495391 fastq.gz 3.4 GB
EGAF00002495392 fastq.gz 3.6 GB
EGAF00002495393 fastq.gz 3.3 GB
EGAF00002495394 fastq.gz 3.4 GB
EGAF00002495395 fastq.gz 3.9 GB
EGAF00002495396 fastq.gz 4.0 GB
EGAF00002495397 fastq.gz 4.0 GB
EGAF00002495398 fastq.gz 4.2 GB
EGAF00002495399 fastq.gz 6.4 GB
EGAF00002495400 fastq.gz 6.8 GB
EGAF00002495401 fastq.gz 5.5 GB
EGAF00002495402 fastq.gz 5.8 GB
EGAF00002495403 fastq.gz 6.9 GB
EGAF00002495404 fastq.gz 7.0 GB
EGAF00002495405 fastq.gz 5.7 GB
EGAF00002495406 fastq.gz 5.8 GB
EGAF00002495407 fastq.gz 4.9 GB
EGAF00002495408 fastq.gz 5.2 GB
EGAF00002495409 fastq.gz 4.8 GB
EGAF00002495410 fastq.gz 4.9 GB
EGAF00002495411 fastq.gz 6.3 GB
EGAF00002495412 fastq.gz 6.6 GB
EGAF00002495413 fastq.gz 5.0 GB
EGAF00002495414 fastq.gz 5.3 GB
EGAF00002495415 fastq.gz 6.9 GB
EGAF00002495416 fastq.gz 7.2 GB
EGAF00002495417 fastq.gz 4.3 GB
EGAF00002495418 fastq.gz 4.6 GB
EGAF00002495419 fastq.gz 9.2 GB
EGAF00002495420 fastq.gz 9.5 GB
EGAF00002495421 fastq.gz 6.3 GB
EGAF00002495422 fastq.gz 6.5 GB
EGAF00002495423 fastq.gz 4.0 GB
EGAF00002495424 fastq.gz 4.1 GB
EGAF00002495425 fastq.gz 3.6 GB
EGAF00002495426 fastq.gz 3.7 GB
EGAF00002495427 fastq.gz 5.6 GB
EGAF00002495428 fastq.gz 5.7 GB
EGAF00002495429 fastq.gz 3.4 GB
EGAF00002495430 fastq.gz 3.5 GB
108 Files (571.5 GB)