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WES fastq files of IPDGC UK cohort

As part of the International Parkinson's Disease Genomics Consortium, exomes of Parkinson's disease (PD) patients and healthy controls were sequenced to study the genetic etiology of PD. This UK cohort consists of 70 PD patients. Researchers can apply for access to fastq files for this cohort.

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Data Access Agreement UCL MT

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 Prof Huw Morris 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: Prof Huw Morris 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. University College London: University College London, Gower Street, London WC1E 6BT, United Kingdom. 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 Prof Huw Morris within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify Prof Huw Morris prior to any significant changes to the protocol for the Project. 14. The User Institution will notify Prof Huw Morris as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. Prof Huw Morris 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 Prof Huw Morris. 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 England and Wales and shall be subject to the exclusive jurisdiction of the English courts. Agreed for User Institution Signature: Name: Title: Date: Principal Investigator I confirm that I have read and understood this Agreement. Signature: Name: Title: Date: Agreed for Prof Huw Morris Signature: Name: Title: Date: APPENDIX I – DATASET DETAILS APPENDIX II ––PROJECT DETAILS APPENDIX III –– PUBLICATION POLICY APPENDIX I – DATASET DETAILS Dataset reference (EGA Study ID and Dataset Details) UK WES Parkinson’s disease samples: This dataset contains whole exome sequencing data of 70 Parkinson’s disease patients originating from the UK. Name of project that created the dataset: International Parkinson’s Disease Genomics Consortium whole exome sequencing project Names of other data producers/collaborators: International Parkinson’s Disease Genomics Consortium Specific limitations on areas of research: Any research breaching the privacy of the participants. 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 Prof Huw Morris 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. Prof Huw Morris 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 3 months after these data were first made available on the relevant hosting database, unless Prof Huw Morris 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 Prof Huw Morris.

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
EGAS00001002156 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
EGAF00001415217 fastq.bz2 3.9 GB
EGAF00001415218 fastq.bz2 3.9 GB
EGAF00001415219 fastq.bz2 3.8 GB
EGAF00001415220 fastq.bz2 3.9 GB
EGAF00001415221 fastq.bz2 3.6 GB
EGAF00001415222 fastq.bz2 3.7 GB
EGAF00001415223 fastq.bz2 3.1 GB
EGAF00001415224 fastq.bz2 3.1 GB
EGAF00001415225 fastq.bz2 2.6 GB
EGAF00001415226 fastq.bz2 2.6 GB
EGAF00001415227 fastq.bz2 3.8 GB
EGAF00001415228 fastq.bz2 3.9 GB
EGAF00001415229 fastq.bz2 2.5 GB
EGAF00001415230 fastq.bz2 2.5 GB
EGAF00001415231 fastq.bz2 3.6 GB
EGAF00001415232 fastq.bz2 3.6 GB
EGAF00001415233 fastq.bz2 4.2 GB
EGAF00001415234 fastq.bz2 4.3 GB
EGAF00001415235 fastq.bz2 3.7 GB
EGAF00001415236 fastq.bz2 3.7 GB
EGAF00001415237 fastq.bz2 4.6 GB
EGAF00001415238 fastq.bz2 4.7 GB
EGAF00001415239 fastq.bz2 3.9 GB
EGAF00001415240 fastq.bz2 3.9 GB
EGAF00001415241 fastq.bz2 3.1 GB
EGAF00001415242 fastq.bz2 3.1 GB
EGAF00001415243 fastq.bz2 1.8 GB
EGAF00001415244 fastq.bz2 1.7 GB
EGAF00001415245 fastq.bz2 3.5 GB
EGAF00001415246 fastq.bz2 3.3 GB
EGAF00001415247 fastq.bz2 4.5 GB
EGAF00001415248 fastq.bz2 4.4 GB
EGAF00001415249 fastq.bz2 3.3 GB
EGAF00001415250 fastq.bz2 3.3 GB
EGAF00001415251 fastq.bz2 2.6 GB
EGAF00001415252 fastq.bz2 2.6 GB
EGAF00001415253 fastq.bz2 1.3 GB
EGAF00001415254 fastq.bz2 1.3 GB
EGAF00001415255 fastq.bz2 3.8 GB
EGAF00001415256 fastq.bz2 3.8 GB
EGAF00001415257 fastq.bz2 4.1 GB
EGAF00001415258 fastq.bz2 4.1 GB
EGAF00001415259 fastq.bz2 4.4 GB
EGAF00001415260 fastq.bz2 4.4 GB
EGAF00001415261 fastq.bz2 3.9 GB
EGAF00001415262 fastq.bz2 4.0 GB
EGAF00001415263 fastq.bz2 4.4 GB
EGAF00001415264 fastq.bz2 4.4 GB
EGAF00001415265 fastq.bz2 4.0 GB
EGAF00001415266 fastq.bz2 4.0 GB
EGAF00001415267 fastq.bz2 3.9 GB
EGAF00001415268 fastq.bz2 3.9 GB
EGAF00001415269 fastq.bz2 3.2 GB
EGAF00001415270 fastq.bz2 3.2 GB
EGAF00001415271 fastq.bz2 1.6 GB
EGAF00001415272 fastq.bz2 1.6 GB
EGAF00001415273 fastq.bz2 4.0 GB
EGAF00001415274 fastq.bz2 3.9 GB
EGAF00001415275 fastq.bz2 3.9 GB
EGAF00001415276 fastq.bz2 3.9 GB
EGAF00001415277 fastq.bz2 4.1 GB
EGAF00001415278 fastq.bz2 4.2 GB
EGAF00001415279 fastq.bz2 3.0 GB
EGAF00001415280 fastq.bz2 3.0 GB
EGAF00001415281 fastq.bz2 3.2 GB
EGAF00001415282 fastq.bz2 3.2 GB
EGAF00001415283 fastq.bz2 3.1 GB
EGAF00001415284 fastq.bz2 3.1 GB
EGAF00001415285 fastq.bz2 3.7 GB
EGAF00001415286 fastq.bz2 3.8 GB
EGAF00001415287 fastq.bz2 4.0 GB
EGAF00001415288 fastq.bz2 4.0 GB
EGAF00001415289 fastq.bz2 3.8 GB
EGAF00001415290 fastq.bz2 3.7 GB
EGAF00001415291 fastq.bz2 4.3 GB
EGAF00001415292 fastq.bz2 4.3 GB
EGAF00001415293 fastq.bz2 3.4 GB
EGAF00001415294 fastq.bz2 3.3 GB
EGAF00001415295 fastq.bz2 4.0 GB
EGAF00001415296 fastq.bz2 4.0 GB
EGAF00001415297 fastq.bz2 2.4 GB
EGAF00001415298 fastq.bz2 2.5 GB
EGAF00001415299 fastq.bz2 3.7 GB
EGAF00001415300 fastq.bz2 3.7 GB
EGAF00001415301 fastq.bz2 3.3 GB
EGAF00001415302 fastq.bz2 3.3 GB
EGAF00001415303 fastq.bz2 4.7 GB
EGAF00001415304 fastq.bz2 4.8 GB
EGAF00001415305 fastq.bz2 4.1 GB
EGAF00001415306 fastq.bz2 4.1 GB
EGAF00001415307 fastq.bz2 2.7 GB
EGAF00001415308 fastq.bz2 2.7 GB
EGAF00001415309 fastq.bz2 1.4 GB
EGAF00001415310 fastq.bz2 1.4 GB
EGAF00001415311 fastq.bz2 2.7 GB
EGAF00001415312 fastq.bz2 2.7 GB
EGAF00001415313 fastq.bz2 1.4 GB
EGAF00001415314 fastq.bz2 1.4 GB
EGAF00001415315 fastq.bz2 3.1 GB
EGAF00001415316 fastq.bz2 3.1 GB
EGAF00001415317 fastq.bz2 2.9 GB
EGAF00001415318 fastq.bz2 2.9 GB
EGAF00001415319 fastq.bz2 1.5 GB
EGAF00001415320 fastq.bz2 1.5 GB
EGAF00001415321 fastq.bz2 3.6 GB
EGAF00001415322 fastq.bz2 3.6 GB
EGAF00001415323 fastq.bz2 3.8 GB
EGAF00001415324 fastq.bz2 3.8 GB
EGAF00001415325 fastq.bz2 3.0 GB
EGAF00001415326 fastq.bz2 3.0 GB
EGAF00001415327 fastq.bz2 4.0 GB
EGAF00001415328 fastq.bz2 4.0 GB
EGAF00001415329 fastq.bz2 4.7 GB
EGAF00001415330 fastq.bz2 4.8 GB
EGAF00001415331 fastq.bz2 5.6 GB
EGAF00001415332 fastq.bz2 5.4 GB
EGAF00001415333 fastq.bz2 4.1 GB
EGAF00001415334 fastq.bz2 4.2 GB
EGAF00001415335 fastq.bz2 4.5 GB
EGAF00001415336 fastq.bz2 4.5 GB
EGAF00001415337 fastq.bz2 3.9 GB
EGAF00001415338 fastq.bz2 3.8 GB
EGAF00001415339 fastq.bz2 3.3 GB
EGAF00001415340 fastq.bz2 3.3 GB
EGAF00001415341 fastq.bz2 4.9 GB
EGAF00001415342 fastq.bz2 5.0 GB
EGAF00001415343 fastq.bz2 3.4 GB
EGAF00001415344 fastq.bz2 3.5 GB
EGAF00001415345 fastq.bz2 4.0 GB
EGAF00001415346 fastq.bz2 4.0 GB
EGAF00001415347 fastq.bz2 2.8 GB
EGAF00001415348 fastq.bz2 2.9 GB
EGAF00001415349 fastq.bz2 1.4 GB
EGAF00001415350 fastq.bz2 1.4 GB
EGAF00001415351 fastq.bz2 4.0 GB
EGAF00001415352 fastq.bz2 4.1 GB
EGAF00001415353 fastq.bz2 4.4 GB
EGAF00001415354 fastq.bz2 4.4 GB
EGAF00001415355 fastq.bz2 4.8 GB
EGAF00001415356 fastq.bz2 4.6 GB
EGAF00001415357 fastq.bz2 3.1 GB
EGAF00001415358 fastq.bz2 3.1 GB
EGAF00001415359 fastq.bz2 4.3 GB
EGAF00001415360 fastq.bz2 4.3 GB
EGAF00001415361 fastq.bz2 3.0 GB
EGAF00001415362 fastq.bz2 3.0 GB
EGAF00001415363 fastq.bz2 5.2 GB
EGAF00001415364 fastq.bz2 5.2 GB
EGAF00001415365 fastq.bz2 3.3 GB
EGAF00001415366 fastq.bz2 3.3 GB
EGAF00001415367 fastq.bz2 4.3 GB
EGAF00001415368 fastq.bz2 4.3 GB
EGAF00001415369 fastq.bz2 3.1 GB
EGAF00001415370 fastq.bz2 3.1 GB
154 Files (543.6 GB)