About file location

As the EGA is co-managed by the EMBL-EBI and CRG, files could be located in the UK and/or Spain, as indicated by their respective flags.

Alternatively, files could be located in one of the international Federated EGA nodes, as indicated next to the node's flag.
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Dataset of Recurrent resistance mutations to lirafugratinib delineate treatment sequences for FGFR2-driven tumors

This dataset is made of 23 pairs of RNAseq and 36 pairs of Exome-seq, both sequenced from Illumina Novaseq. This includes 47 samples, composed of 25 tumors, 13 healthy and 9 xenograft

Request Access

Policy for DAC Recurrent resistance mutations to lirafugratinib delineate treatment sequences for FGFR2-driven tumors

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 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 Authorized Personnel are set out in Appendix II. Data: The managed access datasets to which the User Institution has requested access. Data Producers: The individuals, 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 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(s) that has requested access to the Data (detailed in Appendix II). Data Producers Institution(s): The Institution(s) that has produced the Data (detailed in Appendix I). Data Access Committee: The committee responsible for authorizing access to the data. Committee members are listed in Appendix I. 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 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. 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 (https://www.sanger.ac.uk/wp-content/uploads/fortlauderdalereport.pdf) and the Toronto Statement (http://www.nature.com/nature/journal/v461/n7261/full/461168a.html). This includes but is not limited to recognizing the contribution of the Data Producers and including a proper acknowledgment 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. 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) (https://www.ott.nih.gov/sites/default/files/documents/pdfs/70fr18413.pdf) in conformity with the Organization for Economic Co-operation and Development Guidelines for the Licensing of the Genetic Inventions (2006) (https://www.oecd.org/sti/emerging-tech/36198812.pdf). 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 the Data Access Committee within 30 days of any changes or departures of Authorized Personnel. 13. The User Institution will notify the Data Access Committee prior to any significant changes to the protocol for the Project. 14. The User Institution will notify the Data Access Committee as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. The Data Access Committee 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. 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.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 France and shall be subject to the exclusive jurisdiction of the France courts. Agreed for User Institution (Name, Title, Date, Signature): Principal Investigator (Name, Title, Date, Signature): I confirm that I have read and understood this Agreement. Agreed for the Data Access Committee (Name, Title, Date, Signature): APPENDIX I – DATASET DETAILS & DATA ACCESS COMMITTEE APPENDIX II – PROJECT DETAILS APPENDIX III – PUBLICATION POLICY APPENDIX I – DATASET DETAILS & DATA ACCESS COMMITTEE Dataset reference (EGA Study ID, Dataset Accession Numbers and Dataset Details): Name of the project that created the dataset : Recurrent resistance mutations to lirafugratinib delineate treatment sequences for FGFR2-driven tumors Data Producers Institution(s): Gustave Roussy, 114, rue Edouard Vaillant – 94805 VILLEJUIF Cedex, FRANCE Names of other data producers/collaborators (Name, Email, Job Title): Specific limitations on areas of research: 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. Name of the Data Access Committee: Data Access Committee Members (Name, Email, Job Title): Principal Investigator FACCHINETTI FRANCESCO FRIBOULET Luc Head of Bioinformatics platform Marc Deloger (Marc.DELOGER@gustaveroussy.fr) Data Manager Alicia Tran Dien (Alicia.TRAN-DIEN@gustaveroussy.fr) Data Protection Officer Clara BECHET (Clara.BECHET@gustaveroussy.fr) 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): User Institution(s): All Individuals who the User Institution to be named as registered users (Name, Email, Job Title, Supervisor): All Individuals that should have an account created at the EGA (Name, Email, Job Title): APPENDIX III – PUBLICATION POLICY The Data Access Committee 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 Data Access Committee have published their own global analysis or twelve (12) months after these data were first made available on the relevant hosting database, unless the Data Access Committee 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 the Data Access Committee.

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
EGAS50000001370 Transcriptome Sequencing
EGAS50000001371 Exome Sequencing

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 Quality Report
Located in
i
EGAF50000100475 fq.gz 1.7 GB Report
EGAF50000100476 fq.gz 1.7 GB Report
EGAF50000100527 fq.gz 3.8 GB Report
EGAF50000100528 fq.gz 3.8 GB Report
EGAF50000100529 fq.gz 3.3 GB Report
EGAF50000100530 fq.gz 3.3 GB Report
EGAF50000166250 fastq.gz 1.9 GB Report
EGAF50000166252 fastq.gz 2.0 GB Report
EGAF50000167103 fastq.gz 5.0 GB Report
EGAF50000167104 fastq.gz 5.3 GB Report
EGAF50000167105 fastq.gz 4.6 GB Report
EGAF50000167106 fastq.gz 4.8 GB Report
EGAF50000167711 fastq.gz 2.0 GB Report
EGAF50000167712 fastq.gz 2.0 GB Report
EGAF50000167811 fastq.gz 3.8 GB Report
EGAF50000167812 fastq.gz 3.8 GB Report
EGAF50000480884 fastq.gz 4.6 GB
EGAF50000480885 fastq.gz 4.3 GB
EGAF50000480886 fastq.gz 4.3 GB
EGAF50000480887 fastq.gz 3.8 GB
EGAF50000480888 fastq.gz 2.7 GB
EGAF50000480889 fastq.gz 2.3 GB
EGAF50000480890 fastq.gz 2.5 GB
EGAF50000480891 fastq.gz 639.0 MB
EGAF50000480892 fastq.gz 644.0 MB
EGAF50000480893 fastq.gz 1.6 GB
EGAF50000480894 fastq.gz 1.9 GB
EGAF50000480895 fastq.gz 1.8 GB
EGAF50000480896 fastq.gz 1.9 GB
EGAF50000480897 fastq.gz 3.5 GB
EGAF50000480898 fastq.gz 3.5 GB
EGAF50000480899 fastq.gz 1.9 GB
EGAF50000480900 fastq.gz 1.4 GB
EGAF50000480901 fastq.gz 241.8 MB
EGAF50000480902 fastq.gz 4.2 GB
EGAF50000480903 fastq.gz 2.8 GB
EGAF50000480904 fastq.gz 236.9 MB
EGAF50000480905 fastq.gz 3.3 GB
EGAF50000480906 fastq.gz 1.4 GB
EGAF50000480907 fastq.gz 4.8 GB
EGAF50000480908 fastq.gz 4.9 GB
EGAF50000480909 fastq.gz 3.8 GB
EGAF50000480910 fastq.gz 3.9 GB
EGAF50000480911 fastq.gz 5.4 GB
EGAF50000480912 fastq.gz 5.3 GB
EGAF50000480913 fastq.gz 4.4 GB
EGAF50000480914 fastq.gz 9.0 GB
EGAF50000480915 fastq.gz 4.4 GB
EGAF50000480916 fastq.gz 4.5 GB
EGAF50000480917 fastq.gz 4.0 GB
EGAF50000480918 fastq.gz 4.8 GB
EGAF50000480919 fastq.gz 4.9 GB
EGAF50000480920 fastq.gz 3.1 GB
EGAF50000480921 fastq.gz 4.5 GB
EGAF50000480922 fastq.gz 3.0 GB
EGAF50000480923 fastq.gz 4.0 GB
EGAF50000480924 fastq.gz 4.5 GB
EGAF50000480925 fastq.gz 4.7 GB
EGAF50000480926 fastq.gz 2.5 GB
EGAF50000480927 fastq.gz 2.0 GB
EGAF50000480928 fastq.gz 3.9 GB
EGAF50000480929 fastq.gz 1.1 GB
EGAF50000480930 fastq.gz 1.1 GB
EGAF50000480931 fastq.gz 803.8 MB
EGAF50000480932 fastq.gz 840.9 MB
EGAF50000480933 fastq.gz 3.8 GB
EGAF50000480934 fastq.gz 2.7 GB
EGAF50000480935 fastq.gz 2.8 GB
EGAF50000480936 fastq.gz 1.8 GB
EGAF50000480937 fastq.gz 1.9 GB
EGAF50000480938 fastq.gz 4.5 GB
EGAF50000480939 fastq.gz 5.2 GB
EGAF50000480940 fastq.gz 4.2 GB
EGAF50000480941 fastq.gz 1.1 GB
EGAF50000480942 fastq.gz 1.1 GB
EGAF50000480943 fastq.gz 5.1 GB
EGAF50000480944 fastq.gz 8.7 GB
EGAF50000480945 fastq.gz 1.6 GB
EGAF50000480946 fastq.gz 6.1 GB
EGAF50000480947 fastq.gz 4.2 GB
EGAF50000480948 fastq.gz 3.8 GB
EGAF50000480949 fastq.gz 3.5 GB
EGAF50000480950 fastq.gz 3.6 GB
EGAF50000480951 fastq.gz 7.9 GB
EGAF50000480952 fastq.gz 8.0 GB
EGAF50000480953 fastq.gz 4.1 GB
EGAF50000480954 fastq.gz 2.0 GB
EGAF50000480955 fastq.gz 3.1 GB
EGAF50000480956 fastq.gz 3.0 GB
EGAF50000480957 fastq.gz 2.4 GB
EGAF50000480958 fastq.gz 2.5 GB
EGAF50000480959 fastq.gz 2.3 GB
EGAF50000480960 fastq.gz 2.3 GB
EGAF50000480961 fastq.gz 3.8 GB
EGAF50000480962 fastq.gz 2.3 GB
EGAF50000480963 fastq.gz 4.2 GB
EGAF50000480964 fastq.gz 3.0 GB
EGAF50000480965 fastq.gz 3.0 GB
EGAF50000480966 fastq.gz 3.8 GB
EGAF50000480967 fastq.gz 3.8 GB
EGAF50000480968 fastq.gz 1.7 GB
EGAF50000480969 fastq.gz 6.2 GB
EGAF50000480970 fastq.gz 2.0 GB
EGAF50000480971 fastq.gz 3.8 GB
EGAF50000480972 fastq.gz 2.9 GB
EGAF50000480973 fastq.gz 2.9 GB
EGAF50000480974 fastq.gz 1.5 GB
EGAF50000480975 fastq.gz 1.4 GB
EGAF50000480976 fastq.gz 2.0 GB
EGAF50000480977 fastq.gz 1.6 GB
EGAF50000480978 fastq.gz 4.4 GB
EGAF50000480979 fastq.gz 3.7 GB
EGAF50000480980 fastq.gz 3.4 GB
EGAF50000480981 fastq.gz 3.8 GB
EGAF50000480982 fastq.gz 3.9 GB
EGAF50000480983 fastq.gz 3.9 GB
EGAF50000480984 fastq.gz 3.8 GB
EGAF50000480985 fastq.gz 3.7 GB
118 Files (392.1 GB)