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CXCL8 secreted by immature granulocytes inhibits wildtype hematopoiesis in chronic myelomonocytic leukemia

CXCL8 secreted by immature granulocytes inhibits wildtype hematopoiesis in chronic myelomonocytic leukemia [Abstract] In chronic myelomonocytic leukemia, blocking CXCL8 produced by clonal dysplastic granulocytes is a potential therapeutic strategy to slow disease progression. [Data provided] Exome-sequencing, bulk mRNA-seq and single-cell RNA-seq of iGRAN, monocytes and PBMC of CMML patients and controls.

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DAA CXCL8 secreted by immature granulocytes inhibits wildtype hematopoiesis in chronic myelomonocytic leukemia

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 Authorized Personnel: The individuals at the User Institution to whom the Data Access 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 Authorized Personnel are set out in Appendix II. Data: The managed access datasets to which the User Institution has requested access. Data Producers: The individuals, 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(s) that has requested access to the Data (detailed in Appendix II). Data Producers Institution(s): The Institution(s) that has produced the Data (detailed in Appendix I). Data Access Committee: The committee responsible for authorizing access to the data. Committee members are listed in Appendix I. 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 Authorized 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 (https://www.sanger.ac.uk/wp-content/uploads/fortlauderdalereport.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 acknowledgment 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 analyzing 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) (https://www.ott.nih.gov/sites/default/files/documents/pdfs/70fr18413.pdf) in conformity with the Organization for Economic Co-operation and Development Guidelines for the Licensing of the Genetic Inventions (2006) (https://www.oecd.org/sti/emerging-tech/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 Data Access Committee within 30 days of any changes or departures of Authorized Personnel. 13. The User Institution will notify the Data Access Committee prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the Data Access Committee as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. The Data Access 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. 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 France and shall be subject to the exclusive jurisdiction of the France courts. Agreed for User Institution (Name, Title, Date, Signature): Principal Investigator (Name, Title, Date, Signature): I confirm that I have read and understood this Agreement. Agreed for the Data Access Committee (Name, Title, Date, Signature): APPENDIX I – DATASET DETAILS & DATA ACCESS COMMITTEE APPENDIX II – PROJECT DETAILS APPENDIX III – PUBLICATION POLICY APPENDIX I – DATASET DETAILS & DATA ACCESS COMMITTEE Dataset reference (EGA Study ID, Dataset Accession Numbers and Dataset Details): Name of the project that created the dataset : CXCL8 secreted by immature granulocytes inhibits wildtype hematopoiesis in chronic myelomonocytic leukemia Data Producers Institution(s): Gustave Roussy, 114, rue Edouard Vaillant – 94805 VILLEJUIF Cedex, FRANCE Names of other data producers/collaborators (Name, Email, Job Title): Specific limitations on areas of research: 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. Name of the Data Access Committee: Data Access Committee Members (Name, Email, Job Title): Principal Investigator Dorothee Selimoglu-Buet (Dorothee.SELIMOGLUBUET@gustaveroussy.fr) Eric Solary (eric.solary@gustaveroussy.fr) Francoise Porteu (francoise.porteu@gustaveroussy.fr) Head of Genomics platform Nathalie Droin (nathalie.droin@gustaveroussy.fr) Head of Bioinformatics platform Marc Deloger (Marc.DELOGER@gustaveroussy.fr) Data Manager Melis Cardon (melis.cardon@gustaveroussy.fr) Data Protection Officer Clara BECHET (Clara.BECHET@gustaveroussy.fr) 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): User Institution(s): All Individuals who the User Institution to be named as registered users (Name, Email, Job Title, Supervisor): All Individuals that should have an account created at the EGA (Name, Email, Job Title): APPENDIX III – PUBLICATION POLICY The Data Access Committee anticipates 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 the Data Access Committee have published their own global analysis or twelve (12) months after these data were first made available on the relevant hosting database, unless the Data Access 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 Data Access 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
EGAS50000000555 RNASeq
EGAS50000000556 RNASeq
EGAS50000000557 Exome Sequencing

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
EGAF50000185990 fastq.gz 2.9 GB
EGAF50000185991 fastq.gz 2.9 GB
EGAF50000185992 fastq.gz 3.2 GB
EGAF50000185993 fastq.gz 3.3 GB
EGAF50000185994 fastq.gz 5.0 GB
EGAF50000185995 fastq.gz 5.0 GB
EGAF50000185996 fastq.gz 3.4 GB
EGAF50000185997 fastq.gz 3.5 GB
EGAF50000185998 fastq.gz 4.2 GB
EGAF50000185999 fastq.gz 4.4 GB
EGAF50000186000 fastq.gz 3.3 GB
EGAF50000186001 fastq.gz 3.3 GB
EGAF50000186002 fastq.gz 1.9 GB
EGAF50000186003 fastq.gz 4.5 GB
EGAF50000186004 fastq.gz 1.0 GB
EGAF50000186005 fastq.gz 2.5 GB
EGAF50000186006 fastq.gz 1.3 GB
EGAF50000186007 fastq.gz 1.3 GB
EGAF50000186008 fastq.gz 6.3 GB
EGAF50000186009 fastq.gz 6.3 GB
EGAF50000186010 fastq.gz 1.5 GB
EGAF50000186011 fastq.gz 1.4 GB
EGAF50000186012 fastq.gz 3.4 GB
EGAF50000186013 fastq.gz 3.4 GB
EGAF50000186014 fastq.gz 7.5 GB
EGAF50000186015 fastq.gz 7.5 GB
EGAF50000186016 fastq.gz 1.7 GB
EGAF50000186017 fastq.gz 1.8 GB
EGAF50000186018 fastq.gz 2.0 GB
EGAF50000186019 fastq.gz 2.0 GB
EGAF50000186020 fastq.gz 1.6 GB
EGAF50000186021 fastq.gz 1.5 GB
EGAF50000186022 fastq.gz 2.1 GB
EGAF50000186023 fastq.gz 2.1 GB
EGAF50000186024 fastq.gz 10.6 GB
EGAF50000186025 fastq.gz 10.5 GB
EGAF50000186026 fastq.gz 2.4 GB
EGAF50000186027 fastq.gz 2.4 GB
EGAF50000186028 fastq.gz 1.6 GB
EGAF50000186029 fastq.gz 1.6 GB
EGAF50000186030 fastq.gz 2.0 GB
EGAF50000186031 fastq.gz 2.0 GB
EGAF50000186032 fastq.gz 3.2 GB
EGAF50000186033 fastq.gz 3.1 GB
EGAF50000186034 fastq.gz 2.9 GB
EGAF50000186035 fastq.gz 2.9 GB
EGAF50000186036 fastq.gz 1.4 GB
EGAF50000186037 fastq.gz 1.4 GB
EGAF50000186038 fastq.gz 2.6 GB
EGAF50000186039 fastq.gz 2.6 GB
EGAF50000186040 fastq.gz 4.0 GB
EGAF50000186041 fastq.gz 4.0 GB
EGAF50000186042 fastq.gz 4.5 GB
EGAF50000186043 fastq.gz 4.6 GB
EGAF50000186044 fastq.gz 3.7 GB
EGAF50000186045 fastq.gz 3.7 GB
EGAF50000186046 fastq.gz 3.4 GB
EGAF50000186047 fastq.gz 3.4 GB
EGAF50000186048 fastq.gz 4.0 GB
EGAF50000186049 fastq.gz 4.0 GB
EGAF50000186050 fastq.gz 3.2 GB
EGAF50000186051 fastq.gz 3.2 GB
EGAF50000186052 fastq.gz 4.3 GB
EGAF50000186053 fastq.gz 4.4 GB
EGAF50000186054 fastq.gz 2.7 GB
EGAF50000186055 fastq.gz 2.7 GB
EGAF50000186056 fastq.gz 3.9 GB
EGAF50000186057 fastq.gz 3.9 GB
EGAF50000186058 fastq.gz 2.9 GB
EGAF50000186059 fastq.gz 2.9 GB
EGAF50000186060 fastq.gz 4.8 GB
EGAF50000186061 fastq.gz 4.9 GB
EGAF50000186062 fastq.gz 3.4 GB
EGAF50000186063 fastq.gz 3.4 GB
EGAF50000186064 fastq.gz 2.3 MB
EGAF50000186065 fastq.gz 2.3 MB
EGAF50000186066 fastq.gz 3.2 GB
EGAF50000186067 fastq.gz 3.2 GB
EGAF50000186068 fastq.gz 3.7 GB
EGAF50000186069 fastq.gz 3.6 GB
EGAF50000186070 fastq.gz 7.8 MB
EGAF50000186071 fastq.gz 7.8 MB
EGAF50000186072 fastq.gz 203.6 MB
EGAF50000186073 fastq.gz 447.7 MB
EGAF50000186074 fastq.gz 204.3 MB
EGAF50000186075 fastq.gz 449.6 MB
EGAF50000186076 fastq.gz 203.9 MB
EGAF50000186077 fastq.gz 448.9 MB
EGAF50000186078 fastq.gz 211.7 MB
EGAF50000186079 fastq.gz 468.5 MB
EGAF50000186080 fastq.gz 2.0 GB
EGAF50000186081 fastq.gz 4.5 GB
EGAF50000186082 fastq.gz 2.0 GB
EGAF50000186083 fastq.gz 4.5 GB
EGAF50000186084 fastq.gz 3.6 GB
EGAF50000186085 fastq.gz 3.6 GB
EGAF50000186086 fastq.gz 2.6 GB
EGAF50000186087 fastq.gz 2.7 GB
EGAF50000186088 fastq.gz 16.5 GB
EGAF50000186089 fastq.gz 16.8 GB
EGAF50000186090 fastq.gz 6.7 GB
EGAF50000186091 fastq.gz 6.8 GB
EGAF50000186092 fastq.gz 7.0 GB
EGAF50000186093 fastq.gz 6.9 GB
EGAF50000186094 fastq.gz 4.5 GB
EGAF50000186095 fastq.gz 4.6 GB
EGAF50000186096 fastq.gz 4.4 GB
EGAF50000186097 fastq.gz 4.4 GB
EGAF50000186098 fastq.gz 7.1 GB
EGAF50000186099 fastq.gz 7.2 GB
EGAF50000186100 fastq.gz 5.4 GB
EGAF50000186101 fastq.gz 5.5 GB
EGAF50000186102 fastq.gz 5.1 GB
EGAF50000186103 fastq.gz 5.1 GB
EGAF50000186104 fastq.gz 5.9 GB
EGAF50000186105 fastq.gz 6.0 GB
EGAF50000186106 fastq.gz 6.3 GB
EGAF50000186107 fastq.gz 6.2 GB
EGAF50000186108 fastq.gz 9.5 GB
EGAF50000186109 fastq.gz 9.5 GB
EGAF50000186110 fastq.gz 5.5 GB
EGAF50000186111 fastq.gz 5.5 GB
EGAF50000186112 fastq.gz 6.0 GB
EGAF50000186113 fastq.gz 6.0 GB
EGAF50000186114 fastq.gz 4.2 GB
EGAF50000186115 fastq.gz 4.1 GB
EGAF50000186116 fastq.gz 8.3 GB
EGAF50000186117 fastq.gz 8.4 GB
EGAF50000186118 fastq.gz 6.2 GB
EGAF50000186119 fastq.gz 6.1 GB
EGAF50000186120 fastq.gz 8.1 GB
EGAF50000186121 fastq.gz 8.0 GB
EGAF50000186122 fastq.gz 5.5 GB
EGAF50000186123 fastq.gz 5.4 GB
EGAF50000186124 fastq.gz 5.6 GB
EGAF50000186125 fastq.gz 5.6 GB
136 Files (549.8 GB)