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Familial Multiple Sclerosis study variant calling samples

Familial Multiple Sclerosis study dataset, including variant calling files from 138 samples with three different phenotypes: Multiple Sclerosis (MS), other Autoimmune Diseases (AID) and unaffected individuals.

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IdISSC Neurological Diseases Group DAC 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 IdISSC Neurological Diseases Group DAC 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: IdISSC Neurological Diseases Group DAC 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. - IdISSC Neurological Diseases Group DAC: Jorge Matias-Guiu, Jordi Matias-Guiu Antem, Laura Torre Fuentes and Laura Hernandez Lorenzo. 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 ( ) and the Toronto Statement ( 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) ( ) in conformity with the Organisation for Economic Co-operation and Development Guidelines for the Licensing of the Genetic Inventions (2006) ( ). 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 IdISSC Neurological Diseases Group DAC within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify IdISSC Neurological Diseases Group DAC prior to any significant changes to the protocol for the Project. 14. The User Institution will notify IdISSC Neurological Diseases Group DAC as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. IdISSC Neurological Diseases Group DAC 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 IdISSC Neurological Diseases Group DAC. 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. APPENDIX I – DATASET DETAILS (to be completed by the data producer before passing to applicant) - 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 IdISSC Neurological Diseases Group DAC 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. IdISSC Neurological Diseases Group DAC 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 12 months after these data were first made available on the relevant hosting database, unless IdISSC Neurological Diseases Group DAC 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 IdISSC Neurological Diseases Group DAC.

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
EGAS00001004204 Other
ID File Type Size Located in
EGAF00003446789 vcf 43.8 MB
EGAF00003446790 vcf 43.7 MB
EGAF00003446791 vcf 43.8 MB
EGAF00003446792 vcf 36.8 MB
EGAF00003446793 vcf 36.4 MB
EGAF00003446794 vcf 36.8 MB
EGAF00003446795 vcf 36.9 MB
EGAF00003446796 vcf 36.3 MB
EGAF00003446797 vcf 36.4 MB
EGAF00003446798 vcf 36.2 MB
EGAF00003446799 vcf 36.5 MB
EGAF00003446800 vcf 36.2 MB
EGAF00003446801 vcf 36.7 MB
EGAF00003446802 vcf 36.6 MB
EGAF00003446803 vcf 36.3 MB
EGAF00003446804 vcf 37.1 MB
EGAF00003446805 vcf 36.3 MB
EGAF00003446806 vcf 36.5 MB
EGAF00003446807 vcf 36.6 MB
EGAF00003446808 vcf 36.4 MB
EGAF00003446809 vcf 36.9 MB
EGAF00003446810 vcf 35.3 MB
EGAF00003446811 vcf 35.6 MB
EGAF00003446812 vcf 30.0 MB
EGAF00003446813 vcf 30.4 MB
EGAF00003446814 vcf 30.6 MB
EGAF00003446815 vcf 36.2 MB
EGAF00003446816 vcf 37.1 MB
EGAF00003446817 vcf 37.5 MB
EGAF00003446818 vcf 36.3 MB
EGAF00003446819 vcf 36.8 MB
EGAF00003446820 vcf 35.3 MB
EGAF00003446821 vcf 37.0 MB
EGAF00003446822 vcf 36.5 MB
EGAF00003446823 vcf 36.4 MB
EGAF00003446824 vcf 36.3 MB
EGAF00003446825 vcf 35.8 MB
EGAF00003446826 vcf 36.6 MB
EGAF00003446827 vcf 36.1 MB
EGAF00003446828 vcf 36.5 MB
EGAF00003446829 vcf 36.2 MB
EGAF00003446830 vcf 36.3 MB
EGAF00003446831 vcf 37.1 MB
EGAF00003446832 vcf 37.5 MB
EGAF00003446833 vcf 36.9 MB
EGAF00003446834 vcf 37.6 MB
EGAF00003446835 vcf 36.6 MB
EGAF00003446836 vcf 36.4 MB
EGAF00003446837 vcf 36.5 MB
EGAF00003446838 vcf 35.8 MB
EGAF00003446839 vcf 36.1 MB
EGAF00003446840 vcf 35.9 MB
EGAF00003446841 vcf 36.4 MB
EGAF00003446842 vcf 36.1 MB
EGAF00003446843 vcf 35.7 MB
EGAF00003446844 vcf 35.8 MB
EGAF00003446845 vcf 36.5 MB
EGAF00003446846 vcf 36.4 MB
EGAF00003446847 vcf 37.0 MB
EGAF00003446848 vcf 36.8 MB
EGAF00003446849 vcf 36.6 MB
EGAF00003446850 vcf 36.3 MB
EGAF00003446851 vcf 35.8 MB
EGAF00003446852 vcf 36.9 MB
EGAF00003446853 vcf 36.4 MB
EGAF00003446854 vcf 36.6 MB
EGAF00003446855 vcf 36.4 MB
EGAF00003446856 vcf 36.5 MB
EGAF00003446857 vcf 36.4 MB
EGAF00003446858 vcf 36.7 MB
EGAF00003446859 vcf 36.4 MB
EGAF00003446860 vcf 37.0 MB
EGAF00003446861 vcf 36.5 MB
EGAF00003446862 vcf 36.9 MB
EGAF00003446863 vcf 36.3 MB
EGAF00003446864 vcf 37.4 MB
EGAF00003446865 vcf 36.8 MB
EGAF00003446866 vcf 37.2 MB
EGAF00003446867 vcf 36.4 MB
EGAF00003446870 vcf 36.4 MB
EGAF00003446871 vcf 36.0 MB
EGAF00003446872 vcf 36.5 MB
EGAF00003446873 vcf 35.4 MB
EGAF00003446874 vcf 35.5 MB
EGAF00003446884 vcf 35.8 MB
EGAF00003446885 vcf 35.8 MB
EGAF00003446886 vcf 36.0 MB
EGAF00003446887 vcf 35.6 MB
EGAF00003446888 vcf 35.5 MB
EGAF00003446889 vcf 35.9 MB
EGAF00003446890 vcf 35.5 MB
EGAF00003446894 vcf 35.7 MB
EGAF00003446895 vcf 35.5 MB
EGAF00003446896 vcf 35.9 MB
EGAF00003446897 vcf 36.4 MB
EGAF00003446898 vcf 37.0 MB
EGAF00003446899 vcf 37.5 MB
EGAF00003446901 vcf 37.3 MB
EGAF00003446902 vcf 37.4 MB
EGAF00003446903 vcf 37.6 MB
EGAF00003446904 vcf 37.2 MB
EGAF00003446905 vcf 37.4 MB
EGAF00003446906 vcf 36.4 MB
EGAF00003446907 vcf 36.4 MB
EGAF00003446908 vcf 36.4 MB
EGAF00003446909 vcf 36.9 MB
EGAF00003446910 vcf 36.7 MB
EGAF00003446911 vcf 36.0 MB
EGAF00003446912 vcf 35.7 MB
EGAF00003446914 vcf 36.7 MB
EGAF00003446915 vcf 37.1 MB
EGAF00003446916 vcf 37.7 MB
EGAF00003446917 vcf 37.6 MB
EGAF00003446918 vcf 37.0 MB
EGAF00003446919 vcf 36.4 MB
EGAF00003446920 vcf 36.4 MB
EGAF00003446921 vcf 36.3 MB
EGAF00003446922 vcf 36.8 MB
EGAF00003446923 vcf 36.1 MB
EGAF00003446924 vcf 36.5 MB
EGAF00003446925 vcf 36.5 MB
EGAF00003446926 vcf 35.5 MB
EGAF00003446927 vcf 36.4 MB
EGAF00003446928 vcf 35.4 MB
EGAF00003446929 vcf 36.4 MB
EGAF00003446930 vcf 36.4 MB
EGAF00003446931 vcf 36.4 MB
EGAF00003446932 vcf 36.5 MB
EGAF00003446933 vcf 36.3 MB
EGAF00003446934 vcf 36.7 MB
EGAF00003446935 vcf 36.4 MB
EGAF00003446936 vcf 36.4 MB
EGAF00003446937 vcf 37.1 MB
EGAF00003446938 vcf 36.4 MB
EGAF00003446939 vcf 37.0 MB
EGAF00003446940 vcf 36.6 MB
EGAF00003446941 vcf 36.5 MB
EGAF00003446942 vcf 35.8 MB
138 Files (5.0 GB)