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Epigenetic, transcriptome and TF analysis of human NK cell and T cells

RNA-seq 10 subsets; 5 donors. ATAC-seq 9 subsets, 4 donors; Histone modification profiling 10 subsets, 2 donors all using human NK cell and T cell subsets. TF ChIP-seq Bcl11b, Bach2, Runx2, Gata3, PLZF. Illuminia sequencing platform, ATAC-seq is Paired-end, RNA-seq/ChIP-seq is Single-end

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DAC policy for applicants requiring access to study "Transcriptomic and epigentic analysis of human peripheral blood NK cell subsets revealing role of Bcl11b in differentiation" specifying conditions of confidentiality and usage. Publication moratorium of 12 months after EGA submission date applies.

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 HERM Karolinska Institute study of NK cell differentiation 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 Authorised Personnel are set out in Appendix II. Data: The managed access datasets to which the User Institution has requested access. Data Producers: Yenan Bryceson, Tim Holmes, and Ram Pandey, Karolinska Institutet 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. Data Producer Institution, DAC Data Accession Committee affiliated institutions: Karolinska Institutet, Karolinska University Hospital Huddinge, Stockholm, Sweden 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 (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 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.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 the HERM Karolinska Institute study of NK cell differentiation DAC (Yenan Bryceson, KI, see Appendix I) within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify the HERM Karolinska Institute study of NK cell differentiation DAC (Yenan Bryceson, KI, see Appendix I) prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the HERM Karolinska Institute study of NK cell differentiation DAC (Yenan Bryceson, KI, see Appendix I) as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. The HERM Karolinska Institute study of NK cell differentiation DAC (Yenan Bryceson, KI, see Appendix I) 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 agreed on. 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 Sweden and shall be subject to the exclusive jurisdiction of the Swedish courts.

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
EGAS00001005025 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
EGAF00004982611 fastq.gz 1.4 GB
EGAF00004982612 fastq.gz 1.0 GB
EGAF00004982613 fastq.gz 716.1 MB
EGAF00004982614 bam 2.5 GB
EGAF00004982615 bam 2.4 GB
EGAF00004982616 bam 2.4 GB
EGAF00004982617 bam 1.3 GB
EGAF00004982618 bam 2.2 GB
EGAF00004982619 bam 2.1 GB
EGAF00004982620 fastq.gz 1.0 GB
EGAF00004982621 fastq.gz 1.2 GB
EGAF00004982622 fastq.gz 668.0 MB
EGAF00004982623 fastq.gz 729.5 MB
EGAF00004982624 fastq.gz 1.2 GB
EGAF00004982625 fastq.gz 958.1 MB
EGAF00004982626 fastq.gz 1.8 GB
EGAF00004982627 fastq.gz 1.3 GB
EGAF00004982628 fastq.gz 990.9 MB
EGAF00004982629 fastq.gz 1.2 GB
EGAF00004982630 fastq.gz 1.4 GB
EGAF00004982631 fastq.gz 708.8 MB
EGAF00004982632 fastq.gz 668.3 MB
EGAF00004982633 fastq.gz 1.2 GB
EGAF00004982634 fastq.gz 692.9 MB
EGAF00004982635 fastq.gz 1.1 GB
EGAF00004982636 fastq.gz 1.0 GB
EGAF00004982637 fastq.gz 694.0 MB
EGAF00004982638 fastq.gz 1.1 GB
EGAF00004982639 fastq.gz 853.2 MB
EGAF00004982640 fastq.gz 1.0 GB
EGAF00004982641 fastq.gz 921.6 MB
EGAF00004982642 fastq.gz 1.6 GB
EGAF00004982643 fastq.gz 885.5 MB
EGAF00004982644 fastq.gz 1.1 GB
EGAF00004982645 fastq.gz 805.2 MB
EGAF00004982646 fastq.gz 1.1 GB
EGAF00004982647 bam 2.1 GB
EGAF00004982648 fastq.gz 1.1 GB
EGAF00004982649 bam 2.5 GB
EGAF00004982650 bam 2.0 GB
EGAF00004982651 bam 2.2 GB
EGAF00004998543 fastq.gz 1.2 GB
EGAF00004998544 fastq.gz 1.2 GB
EGAF00004998545 fastq.gz 2.1 GB
EGAF00004998546 fastq.gz 2.2 GB
EGAF00004998547 fastq.gz 2.5 GB
EGAF00004998548 fastq.gz 2.6 GB
EGAF00004998549 fastq.gz 1.1 GB
EGAF00004998550 fastq.gz 1.2 GB
EGAF00004998551 fastq.gz 1.3 GB
EGAF00004998552 fastq.gz 2.6 GB
EGAF00004998553 fastq.gz 2.6 GB
EGAF00004998554 fastq.gz 2.9 GB
EGAF00004998555 fastq.gz 3.0 GB
EGAF00004998556 fastq.gz 5.9 GB
EGAF00004998557 fastq.gz 6.0 GB
EGAF00004998558 fastq.gz 1.4 GB
EGAF00004998559 fastq.gz 1.4 GB
EGAF00004998560 fastq.gz 2.6 GB
EGAF00004998561 fastq.gz 2.7 GB
EGAF00004998562 fastq.gz 1.0 GB
EGAF00004998563 fastq.gz 1.0 GB
EGAF00004998564 fastq.gz 3.8 GB
EGAF00004998565 fastq.gz 3.9 GB
EGAF00004998566 fastq.gz 2.4 GB
EGAF00004998567 fastq.gz 2.4 GB
EGAF00004998568 fastq.gz 2.7 GB
EGAF00004998569 fastq.gz 2.7 GB
EGAF00004998570 fastq.gz 1.0 GB
EGAF00004998571 fastq.gz 1.1 GB
EGAF00004998572 fastq.gz 2.4 GB
EGAF00004998573 fastq.gz 2.5 GB
EGAF00004998574 fastq.gz 1.0 GB
EGAF00004998575 fastq.gz 1.1 GB
EGAF00004998576 fastq.gz 2.3 GB
EGAF00004998577 fastq.gz 2.4 GB
EGAF00004998578 fastq.gz 2.8 GB
EGAF00004998579 fastq.gz 2.9 GB
EGAF00004998580 fastq.gz 2.5 GB
EGAF00004998581 fastq.gz 2.5 GB
EGAF00004998582 fastq.gz 1.4 GB
EGAF00004998583 fastq.gz 1.4 GB
EGAF00004998584 fastq.gz 2.3 GB
EGAF00004998585 fastq.gz 2.4 GB
EGAF00004998586 fastq.gz 1.2 GB
EGAF00004998587 fastq.gz 1.2 GB
EGAF00004998588 fastq.gz 1.2 GB
EGAF00004998589 fastq.gz 2.3 GB
EGAF00004998590 fastq.gz 2.4 GB
EGAF00004998591 fastq.gz 1.5 GB
EGAF00004998592 fastq.gz 949.5 MB
EGAF00004998593 fastq.gz 974.1 MB
EGAF00004998594 fastq.gz 1.0 GB
EGAF00004998595 fastq.gz 1.0 GB
EGAF00004998596 fastq.gz 2.6 GB
EGAF00004998597 fastq.gz 2.7 GB
EGAF00004998598 fastq.gz 83.2 kB
EGAF00004998599 fastq.gz 84.3 kB
EGAF00004998600 fastq.gz 2.6 GB
EGAF00004998601 fastq.gz 2.7 GB
EGAF00004998602 fastq.gz 1.2 GB
EGAF00004998603 fastq.gz 1.2 GB
EGAF00004998604 fastq.gz 1.0 GB
EGAF00004998605 fastq.gz 1.0 GB
EGAF00004998606 fastq.gz 1.2 GB
EGAF00004998607 fastq.gz 1.2 GB
EGAF00004998608 fastq.gz 4.6 GB
EGAF00004998609 fastq.gz 4.8 GB
EGAF00004998610 fastq.gz 2.4 GB
EGAF00004998611 fastq.gz 2.5 GB
EGAF00004998612 fastq.gz 663.9 MB
EGAF00004998613 fastq.gz 679.4 MB
EGAF00004998614 fastq.gz 1.2 GB
EGAF00004998615 fastq.gz 1.3 GB
EGAF00004998616 fastq.gz 2.6 GB
EGAF00004998617 fastq.gz 2.7 GB
EGAF00004998618 fastq.gz 989.9 MB
EGAF00004998619 fastq.gz 1.3 GB
EGAF00004998620 fastq.gz 1.5 GB
EGAF00004998621 fastq.gz 782.1 MB
EGAF00004998622 fastq.gz 609.3 MB
EGAF00004998623 fastq.gz 1.6 GB
EGAF00004998624 fastq.gz 591.3 MB
EGAF00004998625 fastq.gz 753.8 MB
EGAF00004998626 fastq.gz 677.5 MB
EGAF00004998627 fastq.gz 1.8 GB
EGAF00004998628 fastq.gz 1.1 GB
EGAF00004998629 fastq.gz 814.2 MB
EGAF00004998630 fastq.gz 633.1 MB
EGAF00004998631 fastq.gz 1.7 GB
EGAF00004998632 fastq.gz 1.5 GB
EGAF00004998634 fastq.gz 1.4 GB
EGAF00004998635 fastq.gz 1.3 GB
EGAF00004998636 fastq.gz 1.2 GB
EGAF00004998637 fastq.gz 324.4 MB
EGAF00004998638 fastq.gz 329.6 MB
EGAF00004998639 fastq.gz 1.3 GB
EGAF00004998640 fastq.gz 1.3 GB
EGAF00004998641 fastq.gz 1.2 GB
EGAF00004998642 fastq.gz 1.2 GB
EGAF00004998643 fastq.gz 1.1 GB
EGAF00004998644 fastq.gz 610.0 MB
EGAF00004998645 fastq.gz 620.2 MB
EGAF00004998646 fastq.gz 2.5 GB
EGAF00004998647 fastq.gz 2.6 GB
EGAF00004998648 fastq.gz 3.1 GB
EGAF00004998649 fastq.gz 3.2 GB
EGAF00004998650 fastq.gz 1.2 GB
EGAF00004998651 fastq.gz 1.2 GB
EGAF00004998652 fastq.gz 703.4 MB
EGAF00004998653 fastq.gz 527.6 MB
EGAF00004998654 fastq.gz 847.9 MB
EGAF00004998655 fastq.gz 1.6 GB
EGAF00004998656 fastq.gz 1.5 GB
EGAF00004998657 fastq.gz 657.5 MB
EGAF00004998658 fastq.gz 1.0 GB
EGAF00004998659 fastq.gz 934.6 MB
EGAF00004998660 fastq.gz 522.4 MB
EGAF00004998661 fastq.gz 1.2 GB
EGAF00004998662 fastq.gz 2.7 GB
EGAF00004998663 fastq.gz 2.7 GB
EGAF00004998664 fastq.gz 1.5 GB
EGAF00004998665 fastq.gz 1.2 GB
EGAF00004998666 fastq.gz 1.2 GB
EGAF00004998667 fastq.gz 1.2 GB
EGAF00004998668 fastq.gz 1.2 GB
EGAF00004998669 fastq.gz 1.1 GB
EGAF00004998670 fastq.gz 1.4 GB
EGAF00004998671 fastq.gz 1.4 GB
EGAF00004998672 fastq.gz 1.0 GB
EGAF00004998673 fastq.gz 1.7 GB
EGAF00004998674 fastq.gz 1.2 GB
EGAF00004998675 fastq.gz 611.6 MB
EGAF00004998676 fastq.gz 1.3 GB
EGAF00004998677 fastq.gz 1.4 GB
EGAF00004998678 fastq.gz 1.7 GB
EGAF00004998679 fastq.gz 1.9 GB
EGAF00004998680 fastq.gz 1.5 GB
EGAF00004998681 fastq.gz 1.8 GB
EGAF00004998682 fastq.gz 1.1 GB
EGAF00004998683 fastq.gz 1.2 GB
EGAF00004998684 fastq.gz 1.6 GB
EGAF00004998685 fastq.gz 1.6 GB
EGAF00004998686 fastq.gz 1.4 GB
EGAF00004998687 fastq.gz 1.7 GB
EGAF00004998688 fastq.gz 1.7 GB
EGAF00004998689 fastq.gz 1.3 GB
EGAF00004998690 fastq.gz 1.3 GB
EGAF00004998691 fastq.gz 1.1 GB
EGAF00004998692 fastq.gz 1.2 GB
EGAF00004998693 fastq.gz 1.7 GB
EGAF00004998694 fastq.gz 2.2 GB
EGAF00004998695 fastq.gz 2.0 GB
EGAF00004998696 fastq.gz 2.2 GB
EGAF00004998697 fastq.gz 1.7 GB
EGAF00004998698 fastq.gz 1.9 GB
EGAF00004998699 fastq.gz 1.7 GB
EGAF00004998700 fastq.gz 2.6 GB
EGAF00004998701 fastq.gz 1.7 GB
199 Files (321.7 GB)