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Whole Genome Sequences of 18th century African descended individuals from Charleston, South Carolina.

This study presents Whole Genome Sequencing results from the Anson Street African Burial Ground Project, which is a community-based initiative aimed at understanding the histories of 37 Ancestors in Charleston, South Carolina. Here we report fastq files for all 37 Ancestors. DNA was extracted at the University of Tennessee-Knoxville following Dabney et al. 2013, and dual index libraries prepared using a modified NEBNext Ultra II kit with partial USER enzyme digestion. Libraries were then enriched for human genomic DNA (MyBaits) and sequenced on Illumina Platforms.

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DATA ACCESS AGREEMENT

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 Producers grant 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 Anson Street African Burial Ground Project, the University of Pennsylvania, and the collaborators 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 population history of the Research Participants, and work on statistical methods that may be applied to such research. User: The Principal Investigator for the proposed Project who is applying for data access. 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 Data and any resulting analyses of the Data cannot be used for commercial purposes, such as consumer genomics and ancestry testing or for biomedical research on functional SNPs or genetic loci. 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. 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 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. 4. 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. 5. 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 agreement includes but is not limited to recognizing the contribution of the Data Producers and including a proper acknowledgement in all reports or publications resulting from the use of these Data. 6. 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. 7. 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. 8. The User Institution can elect to perform further research that would add intellectual and resource capital to these Data but cannot decide to obtain intellectual property rights on these downstream discoveries. 9. The User Institution agrees to destroy/discard the Data held once they are no longer used for the Project, unless obliged to retain the data for archival purposes in conformity with audit or legal requirements. 10. The User Institution will notify the Data Producers within 30 days of any changes or departures of Authorized Personnel. 11. The User Institution will notify the Data Producers prior to any significant changes to the protocol for the Project. 12. The User Institution will notify the Data Producers as soon as it becomes aware of a breach of the terms or conditions of this agreement. 13. The Data Producers 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. 14. 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 Anson Street African Burial Ground Project. 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. 15. 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. 16. 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. 17. 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 the United States of America and shall be subject to the exclusive jurisdiction of the American courts. Principal Investigator (Requestor / Applicant) I confirm that I have read and understood this Agreement. Signature: Name: Title: Date: Agreed for the Anson Street African Burial Ground Project / University of Pennsylvania (Data Producers) Signature: Name: Theodore G. Schurr, Ph.D. Title: Professor Date: 6 October 2022 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 agreement to Applicant) Dataset reference (EGA Study ID and Dataset Details): Name of project that created the dataset: Anson Street African Burial Ground Project and the University of Pennsylvania Names of other data producers/collaborators: Joanna Gilmore, La’Sheia Oubré, Dr. Raquel Fleskes, Dr. Theodore G. Schurr. Specific limitations on areas of research: The Data may be used only for studies of the genetic history of human populations. They may not be used for commercial applications such as consumer genomics and ancestry testing, or for biomedical research on functional SNPs or genetic loci. Minimum protection measures required: See file access below. File access: Data can be held in unencrypted files on an institutional computer 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 screen locks (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 / Applicant) Details of dataset requested, i.e., EGA Study and Dataset Accession Number: Brief Description of the Project in which the Data will be used (500 words max): All Individuals who the User Institution will name 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 Anson Street African Burial Ground Project intends 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. The Anson Street African Burial Ground Project 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 Anson Street African Burial Ground Project first publishes its peer-reviewed report describing the Data. 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 Anson Street African Burial Ground Project.

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
EGAS00001006693 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
EGAF00007294614 fastq.gz 1.7 GB
EGAF00007294615 fastq.gz 1.7 GB
EGAF00007294616 fastq.gz 801.2 MB
EGAF00007294617 fastq.gz 787.6 MB
EGAF00007294618 fastq.gz 581.3 MB
EGAF00007294619 fastq.gz 583.4 MB
EGAF00007294620 fastq.gz 581.1 MB
EGAF00007294621 fastq.gz 586.5 MB
EGAF00007294622 fastq.gz 57.8 MB
EGAF00007294623 fastq.gz 2.0 GB
EGAF00007294624 fastq.gz 2.0 GB
EGAF00007294625 fastq.gz 714.2 MB
EGAF00007294626 fastq.gz 709.9 MB
EGAF00007294627 fastq.gz 563.3 MB
EGAF00007294628 fastq.gz 559.9 MB
EGAF00007294629 fastq.gz 555.7 MB
EGAF00007294630 fastq.gz 565.2 MB
EGAF00007294631 fastq.gz 41.9 MB
EGAF00007294632 fastq.gz 42.6 MB
EGAF00007294633 fastq.gz 1.5 GB
EGAF00007294634 fastq.gz 1.5 GB
EGAF00007294635 fastq.gz 621.6 MB
EGAF00007294636 fastq.gz 612.6 MB
EGAF00007294637 fastq.gz 476.6 MB
EGAF00007294638 fastq.gz 476.3 MB
EGAF00007294639 fastq.gz 474.4 MB
EGAF00007294640 fastq.gz 477.5 MB
EGAF00007294641 fastq.gz 49.7 MB
EGAF00007294642 fastq.gz 50.0 MB
EGAF00007294643 fastq.gz 2.0 GB
EGAF00007294644 fastq.gz 2.0 GB
EGAF00007294645 fastq.gz 692.5 MB
EGAF00007294646 fastq.gz 686.8 MB
EGAF00007294647 fastq.gz 520.5 MB
EGAF00007294648 fastq.gz 519.5 MB
EGAF00007294649 fastq.gz 516.9 MB
EGAF00007294650 fastq.gz 521.0 MB
EGAF00007294651 fastq.gz 20.1 MB
EGAF00007294652 fastq.gz 20.0 MB
EGAF00007294653 fastq.gz 2.4 GB
EGAF00007294654 fastq.gz 2.4 GB
EGAF00007294655 fastq.gz 828.9 MB
EGAF00007294656 fastq.gz 827.9 MB
EGAF00007294657 fastq.gz 2.6 GB
EGAF00007294658 fastq.gz 2.6 GB
EGAF00007294659 fastq.gz 2.6 GB
EGAF00007294660 fastq.gz 2.6 GB
EGAF00007294661 fastq.gz 24.5 MB
EGAF00007294662 fastq.gz 24.5 MB
EGAF00007294663 fastq.gz 2.0 GB
EGAF00007294664 fastq.gz 2.0 GB
EGAF00007294665 fastq.gz 721.7 MB
EGAF00007294666 fastq.gz 713.9 MB
EGAF00007294667 fastq.gz 535.2 MB
EGAF00007294668 fastq.gz 534.8 MB
EGAF00007294669 fastq.gz 532.6 MB
EGAF00007294670 fastq.gz 537.5 MB
EGAF00007294671 fastq.gz 39.3 MB
EGAF00007294672 fastq.gz 40.2 MB
EGAF00007294673 fastq.gz 2.1 GB
EGAF00007294674 fastq.gz 2.1 GB
EGAF00007294675 fastq.gz 949.4 MB
EGAF00007294676 fastq.gz 932.4 MB
EGAF00007294677 fastq.gz 694.5 MB
EGAF00007294678 fastq.gz 696.8 MB
EGAF00007294679 fastq.gz 694.7 MB
EGAF00007294680 fastq.gz 700.8 MB
EGAF00007294681 fastq.gz 80.5 MB
EGAF00007294682 fastq.gz 88.2 MB
EGAF00007294683 fastq.gz 2.3 GB
EGAF00007294684 fastq.gz 2.3 GB
EGAF00007294685 fastq.gz 923.0 MB
EGAF00007294686 fastq.gz 907.0 MB
EGAF00007294687 fastq.gz 1.9 GB
EGAF00007294688 fastq.gz 1.9 GB
EGAF00007294689 fastq.gz 1.9 GB
EGAF00007294690 fastq.gz 1.9 GB
EGAF00007294691 fastq.gz 16.9 MB
EGAF00007294692 fastq.gz 17.4 MB
EGAF00007294693 fastq.gz 1.8 GB
EGAF00007294694 fastq.gz 1.8 GB
EGAF00007294695 fastq.gz 780.2 MB
EGAF00007294696 fastq.gz 767.0 MB
EGAF00007294697 fastq.gz 570.8 MB
EGAF00007294698 fastq.gz 574.6 MB
EGAF00007294699 fastq.gz 572.6 MB
EGAF00007294700 fastq.gz 578.0 MB
EGAF00007294701 fastq.gz 73.8 MB
EGAF00007294702 fastq.gz 75.0 MB
EGAF00007294703 fastq.gz 1.9 GB
EGAF00007294704 fastq.gz 1.8 GB
EGAF00007294705 fastq.gz 848.7 MB
EGAF00007294706 fastq.gz 829.3 MB
EGAF00007294707 fastq.gz 637.1 MB
EGAF00007294708 fastq.gz 639.0 MB
EGAF00007294709 fastq.gz 638.0 MB
EGAF00007294710 fastq.gz 642.0 MB
EGAF00007294711 fastq.gz 23.5 MB
EGAF00007294712 fastq.gz 25.4 MB
EGAF00007294713 fastq.gz 1.7 GB
EGAF00007294714 fastq.gz 1.7 GB
EGAF00007294715 fastq.gz 628.1 MB
EGAF00007294716 fastq.gz 618.7 MB
EGAF00007294717 fastq.gz 463.7 MB
EGAF00007294718 fastq.gz 464.9 MB
EGAF00007294719 fastq.gz 463.2 MB
EGAF00007294720 fastq.gz 467.1 MB
EGAF00007294721 fastq.gz 24.4 MB
EGAF00007294722 fastq.gz 6.3 GB
EGAF00007294723 fastq.gz 6.5 GB
EGAF00007294724 fastq.gz 32.8 MB
EGAF00007294725 fastq.gz 1.8 GB
EGAF00007294726 fastq.gz 1.8 GB
EGAF00007294727 fastq.gz 35.7 MB
EGAF00007294728 fastq.gz 38.5 MB
EGAF00007294729 fastq.gz 4.6 GB
EGAF00007294730 fastq.gz 4.6 GB
EGAF00007294731 fastq.gz 57.7 MB
EGAF00007294732 fastq.gz 63.0 MB
EGAF00007294733 fastq.gz 1.9 GB
EGAF00007294734 fastq.gz 1.8 GB
EGAF00007294735 fastq.gz 910.5 MB
EGAF00007294736 fastq.gz 893.1 MB
EGAF00007294737 fastq.gz 662.3 MB
EGAF00007294738 fastq.gz 668.2 MB
EGAF00007294739 fastq.gz 666.3 MB
EGAF00007294740 fastq.gz 672.1 MB
EGAF00007294741 fastq.gz 20.1 MB
EGAF00007294742 fastq.gz 22.5 MB
EGAF00007294743 fastq.gz 1.6 GB
EGAF00007294744 fastq.gz 1.6 GB
EGAF00007294745 fastq.gz 684.7 MB
EGAF00007294746 fastq.gz 674.4 MB
EGAF00007294747 fastq.gz 506.8 MB
EGAF00007294748 fastq.gz 503.9 MB
EGAF00007294749 fastq.gz 502.9 MB
EGAF00007294750 fastq.gz 508.4 MB
EGAF00007294751 fastq.gz 17.2 MB
EGAF00007294752 fastq.gz 17.6 MB
EGAF00007294753 fastq.gz 1.9 GB
EGAF00007294754 fastq.gz 1.9 GB
EGAF00007294755 fastq.gz 822.1 MB
EGAF00007294756 fastq.gz 808.1 MB
EGAF00007294757 fastq.gz 638.2 MB
EGAF00007294758 fastq.gz 637.7 MB
EGAF00007294759 fastq.gz 637.8 MB
EGAF00007294760 fastq.gz 642.9 MB
EGAF00007294761 fastq.gz 24.4 MB
EGAF00007294762 fastq.gz 25.2 MB
EGAF00007294763 fastq.gz 1.8 GB
EGAF00007294764 fastq.gz 1.8 GB
EGAF00007294765 fastq.gz 697.6 MB
EGAF00007294766 fastq.gz 688.4 MB
EGAF00007294767 fastq.gz 536.4 MB
EGAF00007294768 fastq.gz 535.2 MB
EGAF00007294769 fastq.gz 534.0 MB
EGAF00007294770 fastq.gz 536.2 MB
EGAF00007294771 fastq.gz 24.5 MB
EGAF00007294772 fastq.gz 24.7 MB
EGAF00007294773 fastq.gz 1.8 GB
EGAF00007294774 fastq.gz 1.8 GB
EGAF00007294775 fastq.gz 665.1 MB
EGAF00007294776 fastq.gz 656.2 MB
EGAF00007294777 fastq.gz 504.3 MB
EGAF00007294778 fastq.gz 503.1 MB
EGAF00007294779 fastq.gz 501.8 MB
EGAF00007294780 fastq.gz 505.2 MB
EGAF00007294781 fastq.gz 29.2 MB
EGAF00007294782 fastq.gz 29.4 MB
EGAF00007294783 fastq.gz 1.6 GB
EGAF00007294784 fastq.gz 1.6 GB
EGAF00007294785 fastq.gz 680.2 MB
EGAF00007294786 fastq.gz 668.3 MB
EGAF00007294787 fastq.gz 500.9 MB
EGAF00007294788 fastq.gz 502.6 MB
EGAF00007294789 fastq.gz 501.9 MB
EGAF00007294790 fastq.gz 505.0 MB
EGAF00007294791 fastq.gz 19.4 MB
EGAF00007294792 fastq.gz 19.5 MB
EGAF00007294793 fastq.gz 1.7 GB
EGAF00007294794 fastq.gz 1.7 GB
EGAF00007294795 fastq.gz 705.4 MB
EGAF00007294796 fastq.gz 697.5 MB
EGAF00007294797 fastq.gz 530.4 MB
EGAF00007294798 fastq.gz 530.1 MB
EGAF00007294799 fastq.gz 527.6 MB
EGAF00007294800 fastq.gz 531.6 MB
EGAF00007294801 fastq.gz 17.9 MB
EGAF00007294802 fastq.gz 18.4 MB
EGAF00007294803 fastq.gz 1.8 GB
EGAF00007294804 fastq.gz 1.8 GB
EGAF00007294805 fastq.gz 698.0 MB
EGAF00007294806 fastq.gz 692.6 MB
EGAF00007294807 fastq.gz 521.1 MB
EGAF00007294808 fastq.gz 519.2 MB
EGAF00007294809 fastq.gz 517.2 MB
EGAF00007294810 fastq.gz 520.8 MB
EGAF00007294811 fastq.gz 16.1 MB
EGAF00007294812 fastq.gz 16.1 MB
EGAF00007294813 fastq.gz 1.9 GB
EGAF00007294814 fastq.gz 1.9 GB
EGAF00007294815 fastq.gz 813.4 MB
EGAF00007294816 fastq.gz 798.6 MB
EGAF00007294817 fastq.gz 595.0 MB
EGAF00007294818 fastq.gz 596.7 MB
EGAF00007294819 fastq.gz 595.4 MB
EGAF00007294820 fastq.gz 598.5 MB
EGAF00007294821 fastq.gz 19.4 MB
EGAF00007294822 fastq.gz 19.7 MB
EGAF00007294823 fastq.gz 1.9 GB
EGAF00007294824 fastq.gz 1.8 GB
EGAF00007294825 fastq.gz 794.5 MB
EGAF00007294826 fastq.gz 785.4 MB
EGAF00007294827 fastq.gz 593.8 MB
EGAF00007294828 fastq.gz 594.3 MB
EGAF00007294829 fastq.gz 592.4 MB
EGAF00007294830 fastq.gz 596.8 MB
EGAF00007294831 fastq.gz 20.8 MB
EGAF00007294832 fastq.gz 22.6 MB
EGAF00007294833 fastq.gz 1.8 GB
EGAF00007294834 fastq.gz 1.8 GB
EGAF00007294835 fastq.gz 743.3 MB
EGAF00007294836 fastq.gz 738.3 MB
EGAF00007294837 fastq.gz 551.5 MB
EGAF00007294838 fastq.gz 552.3 MB
EGAF00007294839 fastq.gz 550.1 MB
EGAF00007294840 fastq.gz 554.1 MB
EGAF00007294841 fastq.gz 21.4 MB
EGAF00007294842 fastq.gz 22.4 MB
EGAF00007294843 fastq.gz 2.3 GB
EGAF00007294844 fastq.gz 2.3 GB
EGAF00007294845 fastq.gz 684.0 MB
EGAF00007294846 fastq.gz 686.4 MB
EGAF00007294847 fastq.gz 1.1 GB
EGAF00007294848 fastq.gz 1.1 GB
EGAF00007294849 fastq.gz 1.1 GB
EGAF00007294850 fastq.gz 1.1 GB
EGAF00007294851 fastq.gz 11.9 MB
EGAF00007294852 fastq.gz 12.0 MB
EGAF00007294853 fastq.gz 1.3 GB
EGAF00007294854 fastq.gz 1.3 GB
EGAF00007294855 fastq.gz 524.0 MB
EGAF00007294856 fastq.gz 515.7 MB
EGAF00007294857 fastq.gz 386.9 MB
EGAF00007294858 fastq.gz 388.5 MB
EGAF00007294859 fastq.gz 387.6 MB
EGAF00007294860 fastq.gz 389.9 MB
EGAF00007294861 fastq.gz 25.6 MB
EGAF00007294862 fastq.gz 25.1 MB
EGAF00007294863 fastq.gz 1.6 GB
EGAF00007294864 fastq.gz 1.6 GB
EGAF00007294865 fastq.gz 669.0 MB
EGAF00007294866 fastq.gz 663.7 MB
EGAF00007294867 fastq.gz 497.5 MB
EGAF00007294868 fastq.gz 497.7 MB
EGAF00007294869 fastq.gz 495.3 MB
EGAF00007294870 fastq.gz 500.4 MB
EGAF00007294871 fastq.gz 26.3 MB
EGAF00007294872 fastq.gz 27.2 MB
EGAF00007294873 fastq.gz 1.9 GB
EGAF00007294874 fastq.gz 1.9 GB
EGAF00007294875 fastq.gz 681.1 MB
EGAF00007294876 fastq.gz 676.2 MB
EGAF00007294877 fastq.gz 556.3 MB
EGAF00007294878 fastq.gz 557.3 MB
EGAF00007294879 fastq.gz 555.0 MB
EGAF00007294880 fastq.gz 559.0 MB
EGAF00007294881 fastq.gz 18.2 MB
EGAF00007294882 fastq.gz 18.1 MB
EGAF00007294883 fastq.gz 2.2 GB
EGAF00007294884 fastq.gz 2.1 GB
EGAF00007294885 fastq.gz 838.5 MB
EGAF00007294886 fastq.gz 837.1 MB
EGAF00007294887 fastq.gz 617.6 MB
EGAF00007294888 fastq.gz 618.4 MB
EGAF00007294889 fastq.gz 616.2 MB
EGAF00007294890 fastq.gz 618.6 MB
EGAF00007294891 fastq.gz 16.1 MB
EGAF00007294892 fastq.gz 15.8 MB
EGAF00007294893 fastq.gz 1.0 GB
EGAF00007294894 fastq.gz 1.0 GB
EGAF00007294895 fastq.gz 618.4 MB
EGAF00007294896 fastq.gz 613.4 MB
EGAF00007294897 fastq.gz 1.2 GB
EGAF00007294898 fastq.gz 1.1 GB
EGAF00007294899 fastq.gz 1.1 GB
EGAF00007294900 fastq.gz 1.2 GB
EGAF00007294901 fastq.gz 11.9 MB
EGAF00007294902 fastq.gz 12.1 MB
289 Files (250.6 GB)