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Whole exome sequencing (WES) of CIMP leukemias

Whole exome sequencing of tumor material derived from 14 mixed myeloid/lymphoid leukemias with a CpG Island Methylator Phenotype (CIMP). For 4 of these patients, normal material was also sequenced and used as control (files with the same identifiers prepended by an “h”).

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Data access policy of the EMC-HEMA-AML consortium for adult acute myeloid leukemia data

THE EMC-HEMA-AML CONSORTIUM DATA ACCESS AGREEMENT This agreement governs the terms on which access will be granted to the genotype data generated by the EMC-HEMA-AML (part of the ERASMUSMC-HEMA consortium) 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: Consortium means the EMC-HEMA-AML Consortium comprised out of the following members: Dr. Bas Wouters, Dr. Ruud Delwel, Roger Mulet-Lázaro, Dr. Mathijs A. Sanders, Dr. Peter J.M. Valk, Data means all and any human genetic data obtained from the Consortium. 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 organization at which the User is employed, affiliated or enrolled. Acute Myeloid Leukemia is hereafter referred to within the agreement as "AML". 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 not to use the data from the adult ALL cohort or any part thereof for the creation of products for sale or for any commercial purpose. 3. 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. 4. 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. 5. 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. 6. 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. The relevant access committess will see to it that the Data is not used in publications outside the project described in the original application. 7. You accept that Data will be reissued 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. 8. You agree to abide by the terms outlined in the Consortium 'Publications Policy' as set out in Schedule 1. 9. You agree to acknowledge in any work based in whole or part on the Data, the published paper from which the Data derives, the version of the data, and the role of the Consortium and the relevant primary collectors and their funders. Suitable wording is provided in the Publications Policy given in Schedule 1. 10. You accept that the Consortium, the original data creators, depositors or copyright holders, 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. 11. You understand and acknowledge that the Data is 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 is not permitted. 12. You recognize 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. 13. 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. 14. You accept that it may be necessary for the 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 Consortium 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. 15. You agree that you will submit a report to the Consortium Data Access Committee, if requested, on completion of the agreed purpose. The Consortium Data Access Committee agrees to treat the report and all information, data, results, and conclusions contained within such report as confidential information belonging to the User Institution. 16. You accept that the Data is protected by and subject to international laws, and that You are responsible for ensuring compliance with any such applicable law. The Consortium Data Access Committee reserves the right to request and inspect data security and management documentation to ensure the adequacy of data protection measures in countries that have no national laws comparable to that which pertain in the EAA. 17. You agree to delete the data from your computers after a period of 2 years, unless an extension request is submitted to the DAC. 18. This agreement shall be construed, interpreted and governed by the laws of the Netherlands and shall be subject to the non-exclusive jurisdiction of the Dutch courts. SCHEDULE 1 Publications Policy The primary purpose of the EMC-HEMA-AML Consortium is to accelerate efforts to identify genome sequence variants influencing major causes of human morbidity and mortality, through implementation and analysis of large-scale genome-wide association studies. Additional objectives include the development and validation of informatics and analytical solutions appropriate to the scale and nature of the project, as well as use of the data generated to answer important methodological and biological questions relevant to association studies in general, and in the Netherlands in particular. The Consortium anticipates that data generated from the project will be used by others, such as required for developing new analytical methods, in understanding patterns of polymorphism and in guiding selection of markers to map genes involved in specific diseases. Authors who use data from the project must acknowledge the EMC-HEMA-AML using the following wording "This study makes use of data generated by the EMC-HEMA-AML Consortium. Cite the relevant primary EMC-HEMA-AML publication”. Users should note that the 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
EGAS00001007094 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
EGAF00008101519 bam 6.1 GB
EGAF00008101520 bam 6.5 GB
EGAF00008101521 bam 7.0 GB
EGAF00008101522 bam 6.5 GB
EGAF00008101523 bam 5.5 GB
EGAF00008101524 bam 6.7 GB
EGAF00008101525 bam 5.7 GB
EGAF00008101526 bam 6.9 GB
EGAF00008101527 bam 7.0 GB
EGAF00008101528 bam 6.2 GB
EGAF00008101529 bam 5.3 GB
EGAF00008101530 bam 8.0 GB
EGAF00008101531 bam 7.7 GB
EGAF00008101532 bam 6.3 GB
EGAF00008101533 bam 5.5 GB
EGAF00008101534 bam 5.0 GB
EGAF00008101535 bam 4.9 GB
EGAF00008101536 bam 4.6 GB
EGAF00008101537 bai 7.6 MB
EGAF00008101538 bai 7.6 MB
EGAF00008101539 bai 8.1 MB
EGAF00008101540 bai 7.7 MB
EGAF00008101541 bai 7.9 MB
EGAF00008101542 bai 7.4 MB
EGAF00008101543 bai 8.0 MB
EGAF00008101544 bai 8.3 MB
EGAF00008101545 bai 7.6 MB
EGAF00008101546 bai 7.8 MB
EGAF00008101547 bai 7.8 MB
EGAF00008101548 bai 7.3 MB
EGAF00008101549 bai 7.5 MB
EGAF00008101550 bai 8.1 MB
EGAF00008101551 bai 7.7 MB
EGAF00008101552 bai 8.1 MB
EGAF00008101553 bai 8.0 MB
EGAF00008101554 bai 7.5 MB
36 Files (111.5 GB)