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RNA-seq of Liver Cancer

The present series corresponds to 161 RNA-seq samples from tumors with matched WES or WGS. Hepatocellular carcinoma (HCC) accounts for more than 90% of liver cancers, and is a major health problem. It is the 3rd cause of cancer-related mortality. Advances in genomic analyses have formed a comprehensive understanding of different underlying pathobiological layers resulting in hepatocarcinogenesis. Thus, the development of next-generation sequencing technologies has made it possible to generate more comprehensive catalogues of somatic alteration events (single nucleotide substitutions, structural variations, and epigenetic changes) in liver cancer genome than ever before.

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FunGeST - Functional Genomics from cancer research to personalized medicine

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 Data Recipient has requested access. The Data Recipient agrees to be bound by these terms and conditions. Definitions GDPR: This DAA makes both parties compliant with the Regulation (EU) 2016/679 of the European Parliament and of the Council, that is, the General Data Protection Regulation (herein referred to as the ‘GDPR’). Data: Refers to managed controlled access datasets (the Data). Under this Agreement, the Data is pseudonymised. Data Access/Transfer: Refers to an Institution’s right to request access to the Data and retrieve them from the Data Controller’s Institution upon approval of this hDAA by the corresponding DAC within the Data Controller’s Institution. Data Handling: Refers to an Institution’s ability to analyse and manipulate the Data within its own computer network. Data Controller(s): Refers to an Institution, responsible for the generation of the Data and its pseudonymisation. A key-code permitting relinkage to Data Subjects is kept by the Data Controller(s). Data Subject: Refers to any individual who is the source of any Data covered by this Agreement. Data Recipient (‘You’): Refers to the Institution who requests Access to the Data through this Agreement. Authorised Personnel: The individual(s) at the Institution requesting Access to the Data. Research Project: The Project for which You have requested Access to the Data. Publications: Refers, without limitation, to any and all articles published in print journals, electronic journals, reviews, books, posters, and other written and verbal presentations of Research that have been accepted by peer review. FunGeST: This DAA was written for the FunGeST functional genomics projects headed at the CRC (Centre de recherche des Cordeliers, Paris, France) 1. You, the Data Recipient, agree to only use the Data for the Purpose of the Project, for Research Purposes only and not in any profit-making activities. You 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. You agree to preserve, at all times, the confidentiality of information and Data pertaining to Data Subjects. You undertake not to use or attempt to use the Data to compromise or otherwise infringe the confidentiality of information on Data Subjects and their right to privacy. Without prejudice to the generality of the foregoing, you agree to use at least the measures set out in Appendix I to protect these Data; 3. You agree not to attempt to identify Data Subjects; 4. You agree not to link or combine the Data to other information or archived data available in a way that could re-identify the Data Subjects, even if access to that data has been formally granted to you or is freely available without restriction. 5. You and your Authorised Personnel agree to take into consideration any usage restrictions (if any), stemming from consent, i.e. the appropriate lawful basis for processing the Data, as well as any usage restrictions stemming from any applicable internal policies of your Institution; 6. You agree that in handling this Data You will follow an up-to-date information technology (IT) policy that must include, at a minimum, the following items: a. Logging and auditing of Access to the Data and to the computer network; b. Password protection to computer network and/or strong data encryption; c. Virus and malware protection to computers on the computer network; d. Secure backup procedure; 7. You acknowledge that Access to the Data is granted for the duration of the Project described in Section I, and these restrictions are specific to that particular Project. Any utilization of the Data for a different Project will require prior approval through a new Agreement. 8. You recognize that nothing in this Agreement shall operate to transfer to You any intellectual property rights to the Data. 9. You agree not to make intellectual property claims on the Data and not to use intellectual property protection in ways that would prevent or block Access to, or use of, any element of the Data. 10. You can elect to perform further Research that would add intellectual and resource capital to the Data, and decide to obtain intellectual property rights on these downstream discoveries. In this case, You agree to implement licensing policies that will not obstruct further Research, following the Organisation for Economic Co-operation and Development Guidelines. 11. You agree that the Research Project 1) bears no legal responsibility for the accuracy or comprehensiveness of the Data; 2) accepts no liability for indirect, consequential, or incidental damages or losses arising from use of the Data; and 3) bears no responsibility for the further analysis or interpretation of these Data over and above that published by the Controller(s). 12. You agree to hold the Data Subject(s) and Data Controller(s) harmless and to defend and indemnify all these parties against all liabilities, demands, damages, expenses, and losses arising out of Your use for any Purpose of the Data. 13. You agree to a moratorium on publishing global analyses of the dataset until the Data Controller(s) have published their own global analysis or twelve (12) months, the maximum, have passed from the time the Data were deposited, whichever occurs first. You acknowledge that prompt publication or public disclosure of the results of the Research Project is encouraged. You also agree that by publishing Your global analyses of the Data, you will not disclose any results generated from the Data. 14. You agree to acknowledge the contribution of the Data Controller(s) in all oral and written presentations, disclosures, and Publications resulting from all analyses of the Data. 15. You agree to use the Data in Your laboratory. Any Authorised Personnel shall work under Your direct supervision. You agree to distribute a copy of these terms to the Authorised Personnel. 16. You may not transfer any information included in the Data to anyone unless specifically designated in the Research Project, or by prior specific or general written authorisation of the Data Controller(s) responsible for the generation of the original Data in each case. 17. You may not transfer the Data itself to anyone outside the Institution, unless the Controller(s) has (have) approved such transfer and its terms in writing. 18. Should You wish to share the Data with an external collaborator, the external collaborator must complete a separate Data Access Agreement. 19. You shall ensure that ‘all’ who have Access to the Data, namely You and Your Authorised Personnel, will be listed out, and are made aware and be bound by the terms of this Agreement. You remain solely and fully responsible for Your Authorised Personnel’s non-compliance with the provision of the Agreement and/or applicable laws. 20. In case of a breach of security resulting from ‘accidental’ use of Data by You and Your Authorised Personnel, which leads to disclosure of Data, then You must report this to Data Controller(s) within 72 hours maximum, and follow any relevant rule as provided by the GDPR. 21. In case of a ‘non-accidental or minor’ breach of DAA by You You will further be required to destroy any Data held. 22. You accept that this Agreement will terminate immediately upon ‘any’ breach by You, or its termination (see Section I). 23. You endeavour to settle any dispute with the Data Controller(s) amicably. If you are unable to reach an Agreement, you will meet and negotiate in good faith in an effort to resolve the issue. If the issue has not been resolved within a reasonable period (e.g. 30 calendar days), you are both entitled to submit it for resolution by an arbitrator. 24. Further, the language of the proceedings will be ‘English’ if not otherwise agreed. The award of the arbitration will be final and binding upon the parties concerned. 25. This Agreement (and any dispute, controversy, proceedings, or claim of whatever nature arising out of it or its formation) shall be interpreted, governed by and construed in accordance with the Laws of France, and shall be subject to the exclusive jurisdiction of the French 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
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
EGAF00001883027 bam 6.3 GB
EGAF00001883028 bam 5.7 GB
EGAF00001883029 bam 5.7 GB
EGAF00001883030 bam 6.1 GB
EGAF00001883031 bam 5.3 GB
EGAF00001883032 bam 5.2 GB
EGAF00001883033 bam 7.0 GB
EGAF00001883034 bam 7.4 GB
EGAF00001883035 bam 6.3 GB
EGAF00001883036 bam 6.2 GB
EGAF00001883037 bam 4.7 GB
EGAF00001883038 bam 6.2 GB
EGAF00001883039 bam 6.2 GB
EGAF00001883040 bam 5.9 GB
EGAF00001883041 bam 8.4 GB
EGAF00001883042 bam 7.2 GB
EGAF00001883043 bam 7.3 GB
EGAF00001883044 bam 9.4 GB
EGAF00001883045 bam 7.9 GB
EGAF00001883046 bam 6.7 GB
EGAF00001883047 bam 7.2 GB
EGAF00001883048 bam 7.6 GB
EGAF00001883049 bam 8.5 GB
EGAF00001883050 bam 7.5 GB
EGAF00001883051 bam 6.6 GB
EGAF00001883052 bam 9.6 GB
EGAF00001883053 bam 6.3 GB
EGAF00001883054 bam 8.3 GB
EGAF00001883055 bam 7.3 GB
EGAF00001883056 bam 8.0 GB
EGAF00001883057 bam 7.9 GB
EGAF00001883058 bam 8.0 GB
EGAF00001883059 bam 6.8 GB
EGAF00001883060 bam 6.4 GB
EGAF00001883061 bam 7.6 GB
EGAF00001883062 bam 7.8 GB
EGAF00001883063 bam 7.8 GB
EGAF00001883064 bam 6.9 GB
EGAF00001883065 bam 6.7 GB
EGAF00001883066 bam 6.9 GB
EGAF00001883067 bam 6.4 GB
EGAF00001883068 bam 7.1 GB
EGAF00001883069 bam 6.6 GB
EGAF00001883070 bam 6.0 GB
EGAF00001883071 bam 7.0 GB
EGAF00001883072 bam 7.5 GB
EGAF00001883073 bam 8.7 GB
EGAF00001883074 bam 6.0 GB
EGAF00001883075 bam 7.7 GB
EGAF00001883076 bam 6.2 GB
EGAF00001883077 bam 7.4 GB
EGAF00001883078 bam 8.2 GB
EGAF00001883079 bam 7.0 GB
EGAF00001883080 bam 5.5 GB
EGAF00001883081 bam 6.6 GB
EGAF00001883082 bam 6.5 GB
EGAF00001883083 bam 6.3 GB
EGAF00001883084 bam 7.3 GB
EGAF00001883085 bam 7.2 GB
EGAF00001883086 bam 8.0 GB
EGAF00001883087 bam 6.0 GB
EGAF00001883088 bam 5.5 GB
EGAF00001883089 bam 6.8 GB
EGAF00001883090 bam 6.2 GB
EGAF00001883091 bam 6.6 GB
EGAF00001883092 bam 6.4 GB
EGAF00001883093 bam 8.0 GB
EGAF00001883094 bam 6.7 GB
EGAF00001883095 bam 7.7 GB
EGAF00001883096 bam 6.8 GB
EGAF00001883097 bam 7.3 GB
EGAF00001883098 bam 7.5 GB
EGAF00001883099 bam 7.2 GB
EGAF00001883100 bam 7.3 GB
EGAF00001883101 bam 6.7 GB
EGAF00001883102 bam 6.5 GB
EGAF00001883103 bam 6.6 GB
EGAF00001883104 bam 6.3 GB
EGAF00001883105 bam 7.4 GB
EGAF00001883106 bam 6.9 GB
EGAF00001883107 bam 6.1 GB
EGAF00001883108 bam 5.8 GB
EGAF00001883109 bam 7.8 GB
EGAF00001883110 bam 6.3 GB
EGAF00001883111 bam 5.8 GB
EGAF00001883112 bam 8.6 GB
EGAF00001883113 bam 6.9 GB
EGAF00001883114 bam 6.5 GB
EGAF00001883115 bam 6.1 GB
EGAF00001883116 bam 5.9 GB
EGAF00001883117 bam 6.0 GB
EGAF00001883118 bam 7.2 GB
EGAF00001883119 bam 7.3 GB
EGAF00001883120 bam 6.0 GB
EGAF00001883121 bam 6.9 GB
EGAF00001883122 bam 6.1 GB
EGAF00001883123 bam 7.0 GB
EGAF00001883124 bam 7.8 GB
EGAF00001883125 bam 6.0 GB
EGAF00001883126 bam 6.2 GB
EGAF00001883127 bam 6.2 GB
EGAF00001883128 bam 7.2 GB
EGAF00001883129 bam 5.6 GB
EGAF00001883130 bam 6.4 GB
EGAF00001883131 bam 6.5 GB
EGAF00001883132 bam 6.2 GB
EGAF00001883133 bam 6.4 GB
EGAF00001883134 bam 6.3 GB
EGAF00001883135 bam 5.5 GB
EGAF00001883136 bam 5.5 GB
EGAF00001883137 bam 6.2 GB
EGAF00001883138 bam 4.1 GB
EGAF00001883139 bam 4.6 GB
EGAF00001883140 bam 4.7 GB
EGAF00001883141 bam 3.8 GB
EGAF00001883142 bam 4.1 GB
EGAF00001883143 bam 4.2 GB
EGAF00001883144 bam 4.1 GB
EGAF00001883145 bam 4.4 GB
EGAF00001883146 bam 4.3 GB
EGAF00001883147 bam 5.1 GB
EGAF00001883148 bam 3.7 GB
EGAF00001883149 bam 3.5 GB
EGAF00001883150 bam 3.8 GB
EGAF00001883151 bam 5.0 GB
EGAF00001883152 bam 3.4 GB
EGAF00001883153 bam 6.0 GB
EGAF00001883154 bam 3.7 GB
EGAF00001883155 bam 5.1 GB
EGAF00001883156 bam 3.9 GB
EGAF00001883157 bam 4.2 GB
EGAF00001883158 bam 4.3 GB
EGAF00001883159 bam 4.3 GB
EGAF00001883160 bam 4.1 GB
EGAF00001883161 bam 3.8 GB
EGAF00001883162 bam 3.9 GB
EGAF00001883163 bam 4.0 GB
EGAF00001883164 bam 4.1 GB
EGAF00001883165 bam 4.2 GB
EGAF00001883166 bam 4.1 GB
EGAF00001883167 bam 3.9 GB
EGAF00001883168 bam 3.3 GB
EGAF00001883169 bam 4.9 GB
EGAF00001883170 bam 3.4 GB
EGAF00001883171 bam 2.7 GB
EGAF00001883172 bam 3.3 GB
EGAF00001883173 bam 5.4 GB
EGAF00001883174 bam 5.2 GB
EGAF00001883175 bam 5.5 GB
EGAF00001883176 bam 4.4 GB
EGAF00001883177 bam 6.5 GB
EGAF00001883178 bam 7.8 GB
EGAF00001883179 bam 6.1 GB
EGAF00001883180 bam 8.2 GB
EGAF00001883181 bam 6.3 GB
EGAF00001883182 bam 6.0 GB
EGAF00001883183 bam 5.9 GB
EGAF00001883184 bam 7.3 GB
EGAF00001883185 bam 7.0 GB
EGAF00001883186 bam 6.8 GB
EGAF00001883187 bam 7.0 GB
161 Files (995.7 GB)