Need Help?

Longitudinal ctDNA in Uveal Melanoma

This dataset contains data from 11 uveal melanoma patients. Plasma samples were collected at baseline, 2-weeks, 3-, 6-, and 12-months post treatment (surgery/radiation). Samples underwent targeted panel, shallow whole genome, and cfMeDIP sequencing. A total of 46 plasma samples, 7 tumours, 11 buffy coats, and 10 healthy controls are included.

Request Access

This DAC is for the uveal melanoma study at the OICR/PMCC

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 (DAC) grants access to the Data. This includes the User, and those individuals under the direct supervision of the User, as well as any other individuals listed in Appendix II. 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, as is outlined in the Appendix 1 attached hereto. Data Producers: The Principal Investigator responsible for the creation of this Data and other investigators responsible for the creation of this 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. Research Ethics Board Approval shall mean approval of the Project by the User Institution’s research ethics board or other research ethics board or independent review board for whom said User Institution obtains research ethics approval(s). User: The principal investigator for the Project. User Institution(s): The Institution that has requested access to the Data. University Health Network: The University Health Network (UHN) is the largest clinical and research hospital in Canada. UHN is affiliated with the University of Toronto and is a member of the Toronto Academic Health Science Network. 1. The User Institution agrees to only use these Data for the purpose of the Project (described in Appendix II) within the Research Purposes, and only in accordance with Research Ethics Board Approval, and any conditions or restrictions imposed pursuant to such Research Ethics Board Approval. 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 breach the anonymity of the Research Participants, including agreeing to not attempt to re-identify or contact any Research Participant. 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 the Data. Despite the confidentiality of the Data, the User Institution may publish aggregate data and other results arising from use of the Data and may refer to the Data by reference to the accession number(s) as documented in Appendix I in further support of any publication resulting from use of said 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 re-identification. 4. The User Institution agrees not to link or combine these Data to other information or archived data in a way that could re-identify the Research Participants, even if access to that other 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 and enter into a separate Data Access Agreement. 6. The User Institution agrees that the Data Producers, and all other parties involved in the creation, funding or provision 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 recognize the contribution of the Data Producers and include 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 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. 11. The User Institution agrees to destroy/delete the Data held, once it is no longer being used for the Project, or in the event that the User departs the User Institution or otherwise can no longer complete the Project, with the proviso that the User Institution can retain a copy of the Data for archival purposes only in conformity with audit or legal requirements. 12. The User Institution will notify the DAC within 30 days of any changes or departures of the User, at which point the Project will terminate and the User Institution delete or destroy the Data (as per Section 11) unless otherwise agreed by the DAC. 13. The User Institution will notify the DAC prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the DAC as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. Either party may terminate this agreement by written notice to the other party. 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. The Parties agree to remain silent on choice of law. Agreed for User Institution Signature: Name: Title: Date: User I confirm that I have read and understood this Agreement. Signature: Name: Title: Date: Agreed for The Data Access Committee 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) Name of project that created the dataset Names of UHN Principal Investigator and other team members responsible for the Creation of the Data Specific limitations on areas of research (if any) as imposed by the Patient Consent and any further limitations imposed by Principal Investigator of Data Producer n/a Minimum protection measures required User Institution and Authorized Users cannot share the files with other external collaborators unless obtaining specific approval by the DAC and agreement between such external collaborator(s) and University Health Network. Raw Files shall not be uploaded in an open database. As per the Agreement, Research Ethics Board Approval of the Project under submission is required unless waived in writing by UHN. 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. All Data must be held by User Institution behind a secure firewall. If Data is transferred using USB keys or other portable hard drives, the USB key or portable harddrive 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 In any publications based on these Data, please describe how the data has been 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 the underlying publication from which this data was derived (if relevant) in the standard form.

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
EGAS00001006373 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
EGAF00006221129 bam 7.6 GB
EGAF00006221130 bam 5.6 GB
EGAF00006221131 bam 7.0 GB
EGAF00006221132 bam 7.3 GB
EGAF00006221133 bam 7.1 GB
EGAF00006221134 bam 6.6 GB
EGAF00006221135 bam 7.1 GB
EGAF00006221136 bam 4.8 GB
EGAF00006221137 bam 6.6 GB
EGAF00006221138 bam 7.4 GB
EGAF00006221139 bam 7.9 GB
EGAF00006221140 bam 9.7 GB
EGAF00006221141 bam 9.2 GB
EGAF00006221142 bam 4.5 GB
EGAF00006221143 bam 3.8 GB
EGAF00006221144 bam 7.7 GB
EGAF00006221145 bam 3.7 GB
EGAF00006221146 bam 6.5 GB
EGAF00006221147 bam 5.2 GB
EGAF00006221148 bam 3.8 GB
EGAF00006221149 bam 3.9 GB
EGAF00006221150 bam 5.3 GB
EGAF00006221151 bam 6.1 GB
EGAF00006221152 bam 4.9 GB
EGAF00006221153 bam 7.3 GB
EGAF00006221154 bam 8.7 GB
EGAF00006221155 bam 5.5 GB
EGAF00006221156 bam 4.3 GB
EGAF00006221157 bam 4.5 GB
EGAF00006221158 bam 4.4 GB
EGAF00006221159 bam 5.1 GB
EGAF00006221160 bam 4.0 GB
EGAF00006221161 bam 4.8 GB
EGAF00006221162 bam 4.5 GB
EGAF00006221163 bam 7.1 GB
EGAF00006221164 bam 4.0 GB
EGAF00006221165 bam 7.4 GB
EGAF00006221166 bam 5.6 GB
EGAF00006221167 bam 3.9 GB
EGAF00006221168 bam 2.9 GB
EGAF00006221169 bam 3.6 GB
EGAF00006221170 bam 7.4 GB
EGAF00006221171 bam 5.2 GB
EGAF00006221172 bam 4.9 GB
EGAF00006221173 bam 4.8 GB
EGAF00006221174 bam 5.1 GB
EGAF00006221175 bam 5.1 GB
EGAF00006221176 bam 8.1 GB
EGAF00006221177 bam 4.0 GB
EGAF00006221178 bam 3.6 GB
EGAF00006221179 bam 2.9 GB
EGAF00006221180 bam 4.2 GB
EGAF00006221181 bam 3.9 GB
EGAF00006221182 bam 1.5 GB
EGAF00006221183 bam 1.1 GB
EGAF00006221184 bam 1.0 GB
EGAF00006221185 bam 1.4 GB
EGAF00006221186 bam 1.0 GB
EGAF00006221187 bam 562.8 MB
EGAF00006221188 bam 1.6 GB
EGAF00006221189 bam 1.2 GB
EGAF00006221190 bam 2.7 GB
EGAF00006221191 bam 1.3 GB
EGAF00006221192 bam 986.3 MB
EGAF00006221193 bam 871.3 MB
EGAF00006221194 bam 1.9 GB
EGAF00006221195 bam 1.4 GB
EGAF00006221196 bam 1.7 GB
EGAF00006221197 bam 1.3 GB
EGAF00006221198 bam 1.3 GB
EGAF00006221199 bam 1.0 GB
EGAF00006221200 bam 1.8 GB
EGAF00006221201 bam 1.9 GB
EGAF00006221202 bam 1.4 GB
EGAF00006221203 bam 1.8 GB
EGAF00006221204 bam 1.8 GB
EGAF00006221205 bam 650.9 MB
EGAF00006221206 bam 1.9 GB
EGAF00006221207 bam 1.6 GB
EGAF00006221208 bam 1.6 GB
EGAF00006221209 bam 2.0 GB
EGAF00006221210 bam 1.2 GB
EGAF00006221211 bam 1.7 GB
EGAF00006221212 bam 1.3 GB
EGAF00006221213 bam 1.5 GB
EGAF00006221214 bam 2.4 GB
EGAF00006221215 bam 1.6 GB
EGAF00006221216 bam 1.9 GB
EGAF00006221217 bam 1.9 GB
EGAF00006221218 bam 1.7 GB
EGAF00006221219 bam 2.5 GB
EGAF00006221220 bam 1.4 GB
EGAF00006221221 bam 2.4 GB
EGAF00006221222 bam 442.7 MB
EGAF00006221223 bam 1.7 GB
EGAF00006221224 bam 1.8 GB
EGAF00006221225 bam 889.5 MB
EGAF00006221226 bam 1.8 GB
EGAF00006221227 bam 2.7 GB
EGAF00006221228 bam 2.6 GB
EGAF00006221229 bam 1.8 GB
EGAF00006221230 bam 3.8 GB
EGAF00006221231 bam 488.4 MB
EGAF00006221232 bam 1.1 GB
EGAF00006221233 bam 2.5 GB
EGAF00006221234 bam 1.7 GB
EGAF00006221235 bam 2.7 GB
EGAF00006221236 bam 2.5 GB
EGAF00006221237 bam 2.6 GB
EGAF00006221238 bam 990.1 MB
EGAF00006221239 bam 731.3 MB
EGAF00006221240 bam 3.1 GB
EGAF00006221241 bam 3.1 GB
EGAF00006221242 bam 2.8 GB
EGAF00006221243 bam 2.8 GB
EGAF00006221244 bam 2.8 GB
EGAF00006221245 bam 910.5 MB
EGAF00006221246 bam 2.1 GB
EGAF00006221247 bam 1.4 GB
EGAF00006221248 bam 1.3 GB
EGAF00006221249 bam 1.4 GB
EGAF00006221250 bam 2.7 GB
EGAF00006221251 bam 2.6 GB
EGAF00006221252 bam 2.6 GB
EGAF00006221253 bam 1.9 GB
EGAF00006221254 bam 2.5 GB
EGAF00006221255 bam 2.2 GB
EGAF00006221256 bam 4.7 GB
EGAF00006221257 bam 2.4 GB
EGAF00006221258 bam 2.1 GB
EGAF00006221259 bam 1.9 GB
EGAF00006221260 bam 2.3 GB
EGAF00006221261 bam 5.7 GB
EGAF00006221262 bam 1.8 GB
EGAF00006221263 bam 5.2 GB
EGAF00006221264 bam 2.2 GB
EGAF00006221265 bam 4.1 GB
EGAF00006221266 bam 3.7 GB
EGAF00006221267 bam 4.0 GB
EGAF00006221268 bam 3.6 GB
EGAF00006221269 bam 4.4 GB
EGAF00006221270 bam 6.6 GB
EGAF00006221271 bam 3.6 GB
EGAF00006221272 bam 5.7 GB
EGAF00006221273 bam 7.2 GB
EGAF00006221274 bam 3.5 GB
EGAF00006221275 bam 6.1 GB
EGAF00006221276 bam 9.3 GB
EGAF00006221277 bam 3.5 GB
EGAF00006221278 bam 4.0 GB
EGAF00006221279 bam 4.8 GB
EGAF00006221280 bam 4.6 GB
EGAF00006221281 bam 6.0 GB
EGAF00006221282 bam 5.2 GB
EGAF00006221283 bam 3.4 GB
EGAF00006221284 bam 5.4 GB
EGAF00006221285 bam 4.0 GB
EGAF00006221286 bam 5.0 GB
EGAF00006221287 bam 5.3 GB
EGAF00006221288 bam 2.3 GB
EGAF00006221289 bam 4.3 GB
EGAF00006221290 bam 2.6 GB
EGAF00006221291 bam 4.8 GB
EGAF00006221292 bam 2.4 GB
EGAF00006221293 bam 5.9 GB
EGAF00006221294 bam 3.2 GB
EGAF00006221295 bam 5.2 GB
EGAF00006221296 bam 5.0 GB
EGAF00006221297 bam 3.2 GB
EGAF00006221298 bam 5.5 GB
EGAF00006221299 bam 6.4 GB
EGAF00006221300 bam 4.1 GB
EGAF00006221301 bam 5.2 GB
EGAF00006221302 bam 5.0 GB
EGAF00006221303 bam 3.8 GB
EGAF00006221304 bam 4.3 GB
EGAF00006221305 bam 6.6 GB
EGAF00006221306 bam 5.2 GB
EGAF00006221307 bam 4.3 GB
EGAF00006221308 bam 3.9 GB
EGAF00006221309 bam 4.3 GB
EGAF00006221310 bam 3.7 GB
EGAF00006221311 bam 4.4 GB
EGAF00006221312 bam 5.4 GB
EGAF00006221313 bam 3.5 GB
EGAF00006221314 bam 5.5 GB
EGAF00006221315 bam 4.8 GB
EGAF00006221316 bam 4.9 GB
EGAF00006221317 bam 4.6 GB
EGAF00006221318 bam 5.7 GB
EGAF00006221319 bam 5.1 GB
191 Files (713.8 GB)