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ICARUS-LUNG01 dataset

A total of 46 frozen tumor biopsies underwent WES analysis, while 41 blood samples were used as germline controls.Tumor samples qualified for whole exome sequencing (WES) if they contained ≥10% tumor cells. For bulk RNA-seq, 20 paired baseline and on-treatment frozen tumor biopsies were analyzed. Tumor samples qualified if they contained ≥30% tumor cells.

Request Access

Policy of ICARUS LUNG01

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 : ICARUS LUNG01 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 David Planchard (david.planchard@gustaveroussy.fr) Guillaume Montagnac (guillaume.montagnac@gustaveroussy.fr) Fabrice Andre (FABRICE.ANDRE@gustaveroussy.fr) Head of Bioinformatics platform Marc Deloger (Marc.DELOGER@gustaveroussy.fr) Bio-informatician Yoann Pradat (Yoann.PRADAT@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
EGAS50000000732 RNASeq
EGAS50000000733 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 Located in
EGAF50000256430 fastq.gz 134.4 MB
EGAF50000256431 fastq.gz 151.1 MB
EGAF50000256432 fastq.gz 3.1 GB
EGAF50000256433 fastq.gz 3.1 GB
EGAF50000256434 fastq.gz 1.1 GB
EGAF50000256435 fastq.gz 1.1 GB
EGAF50000256436 fastq.gz 3.0 GB
EGAF50000256437 fastq.gz 3.1 GB
EGAF50000256438 fastq.gz 5.1 GB
EGAF50000256439 fastq.gz 4.9 GB
EGAF50000256440 fastq.gz 966.8 MB
EGAF50000256441 fastq.gz 1.2 GB
EGAF50000256442 fastq.gz 2.2 GB
EGAF50000256443 fastq.gz 2.2 GB
EGAF50000256444 fastq.gz 10.6 GB
EGAF50000256445 fastq.gz 10.7 GB
EGAF50000256446 fastq.gz 5.6 GB
EGAF50000256447 fastq.gz 5.6 GB
EGAF50000256448 fastq.gz 4.1 GB
EGAF50000256449 fastq.gz 4.1 GB
EGAF50000256450 fastq.gz 3.2 GB
EGAF50000256451 fastq.gz 3.3 GB
EGAF50000256452 fastq.gz 2.8 GB
EGAF50000256453 fastq.gz 2.9 GB
EGAF50000256454 fastq.gz 1.3 GB
EGAF50000256455 fastq.gz 1.3 GB
EGAF50000256456 fastq.gz 2.0 GB
EGAF50000256457 fastq.gz 2.0 GB
EGAF50000256458 fastq.gz 1.3 GB
EGAF50000256459 fastq.gz 1.3 GB
EGAF50000256460 fastq.gz 510.7 MB
EGAF50000256461 fastq.gz 595.6 MB
EGAF50000256462 fastq.gz 1.3 GB
EGAF50000256463 fastq.gz 1.3 GB
EGAF50000256464 fastq.gz 3.0 GB
EGAF50000256465 fastq.gz 3.0 GB
EGAF50000256466 fastq.gz 1.8 GB
EGAF50000256467 fastq.gz 1.9 GB
EGAF50000256468 fastq.gz 15.6 GB
EGAF50000256469 fastq.gz 15.8 GB
EGAF50000256470 fastq.gz 652.4 MB
EGAF50000256471 fastq.gz 649.3 MB
EGAF50000256472 fastq.gz 6.1 GB
EGAF50000256473 fastq.gz 5.7 GB
EGAF50000256474 fastq.gz 4.5 GB
EGAF50000256475 fastq.gz 4.6 GB
EGAF50000256476 fastq.gz 2.2 GB
EGAF50000256477 fastq.gz 2.1 GB
EGAF50000256478 fastq.gz 1.4 GB
EGAF50000256479 fastq.gz 1.4 GB
EGAF50000256480 fastq.gz 1.7 GB
EGAF50000256481 fastq.gz 1.7 GB
EGAF50000256482 fastq.gz 1.5 GB
EGAF50000256483 fastq.gz 1.5 GB
EGAF50000256484 fastq.gz 1.7 GB
EGAF50000256485 fastq.gz 1.7 GB
EGAF50000256486 fastq.gz 637.3 MB
EGAF50000256487 fastq.gz 652.6 MB
EGAF50000256488 fastq.gz 4.0 GB
EGAF50000256489 fastq.gz 3.9 GB
EGAF50000256490 fastq.gz 966.3 MB
EGAF50000256491 fastq.gz 919.6 MB
EGAF50000256492 fastq.gz 1.3 GB
EGAF50000256493 fastq.gz 1.3 GB
EGAF50000256494 fastq.gz 1.9 GB
EGAF50000256495 fastq.gz 1.9 GB
EGAF50000256496 fastq.gz 512.4 MB
EGAF50000256497 fastq.gz 499.8 MB
EGAF50000256498 fastq.gz 1.5 GB
EGAF50000256499 fastq.gz 1.5 GB
EGAF50000256500 fastq.gz 10.5 GB
EGAF50000256501 fastq.gz 10.5 GB
EGAF50000256502 fastq.gz 2.4 GB
EGAF50000256503 fastq.gz 2.3 GB
EGAF50000256504 fastq.gz 9.5 GB
EGAF50000256505 fastq.gz 9.4 GB
EGAF50000256506 fastq.gz 754.3 MB
EGAF50000256507 fastq.gz 742.1 MB
EGAF50000256508 fastq.gz 5.2 GB
EGAF50000256509 fastq.gz 5.3 GB
EGAF50000256510 fastq.gz 349.1 MB
EGAF50000256511 fastq.gz 355.9 MB
EGAF50000256512 fastq.gz 3.7 GB
EGAF50000256513 fastq.gz 3.7 GB
EGAF50000256514 fastq.gz 2.1 GB
EGAF50000256515 fastq.gz 1.9 GB
EGAF50000256516 fastq.gz 4.0 GB
EGAF50000256517 fastq.gz 3.8 GB
EGAF50000256518 fastq.gz 2.1 GB
EGAF50000256519 fastq.gz 2.2 GB
EGAF50000256520 fastq.gz 5.8 GB
EGAF50000256521 fastq.gz 5.7 GB
EGAF50000256522 fastq.gz 3.7 GB
EGAF50000256523 fastq.gz 3.7 GB
EGAF50000256524 fastq.gz 8.3 GB
EGAF50000256525 fastq.gz 8.3 GB
EGAF50000256526 fastq.gz 3.4 GB
EGAF50000256527 fastq.gz 3.4 GB
EGAF50000256528 fastq.gz 5.5 GB
EGAF50000256529 fastq.gz 5.4 GB
EGAF50000256530 fastq.gz 5.4 GB
EGAF50000256531 fastq.gz 5.3 GB
EGAF50000256532 fastq.gz 2.2 GB
EGAF50000256533 fastq.gz 2.3 GB
EGAF50000256534 fastq.gz 4.7 GB
EGAF50000256535 fastq.gz 4.7 GB
EGAF50000256536 fastq.gz 3.3 GB
EGAF50000256537 fastq.gz 3.3 GB
EGAF50000256538 fastq.gz 3.8 GB
EGAF50000256539 fastq.gz 3.9 GB
EGAF50000256540 fastq.gz 5.2 GB
EGAF50000256541 fastq.gz 5.3 GB
EGAF50000256542 fastq.gz 5.5 GB
EGAF50000256543 fastq.gz 5.5 GB
EGAF50000256544 fastq.gz 4.1 GB
EGAF50000256545 fastq.gz 4.2 GB
EGAF50000256546 fastq.gz 5.3 GB
EGAF50000256547 fastq.gz 5.3 GB
EGAF50000256548 fastq.gz 4.9 GB
EGAF50000256549 fastq.gz 4.9 GB
EGAF50000256550 fastq.gz 11.0 GB
EGAF50000256551 fastq.gz 11.2 GB
EGAF50000256552 fastq.gz 8.5 GB
EGAF50000256553 fastq.gz 8.6 GB
EGAF50000256554 fastq.gz 3.8 GB
EGAF50000256555 fastq.gz 3.8 GB
EGAF50000256556 fastq.gz 4.9 GB
EGAF50000256557 fastq.gz 5.0 GB
EGAF50000256558 fastq.gz 4.7 GB
EGAF50000256559 fastq.gz 4.7 GB
EGAF50000256560 fastq.gz 5.4 GB
EGAF50000256561 fastq.gz 5.4 GB
EGAF50000256562 fastq.gz 4.9 GB
EGAF50000256563 fastq.gz 4.9 GB
EGAF50000256564 fastq.gz 7.0 GB
EGAF50000256565 fastq.gz 7.4 GB
EGAF50000256566 fastq.gz 6.1 GB
EGAF50000256567 fastq.gz 6.1 GB
EGAF50000256568 fastq.gz 5.6 GB
EGAF50000256569 fastq.gz 5.7 GB
EGAF50000256570 fastq.gz 4.4 GB
EGAF50000256571 fastq.gz 4.5 GB
EGAF50000256572 fastq.gz 3.7 GB
EGAF50000256573 fastq.gz 3.7 GB
EGAF50000256574 fastq.gz 2.6 GB
EGAF50000256575 fastq.gz 2.5 GB
EGAF50000256576 fastq.gz 2.1 GB
EGAF50000256577 fastq.gz 2.1 GB
EGAF50000256578 fastq.gz 6.3 GB
EGAF50000256579 fastq.gz 6.4 GB
EGAF50000256580 fastq.gz 11.7 GB
EGAF50000256581 fastq.gz 12.1 GB
EGAF50000256582 fastq.gz 8.9 GB
EGAF50000256583 fastq.gz 9.0 GB
EGAF50000256584 fastq.gz 5.0 GB
EGAF50000256585 fastq.gz 5.1 GB
EGAF50000256586 fastq.gz 7.3 GB
EGAF50000256587 fastq.gz 7.5 GB
EGAF50000256588 fastq.gz 1.6 GB
EGAF50000256589 fastq.gz 1.6 GB
EGAF50000256590 fastq.gz 2.0 GB
EGAF50000256591 fastq.gz 2.0 GB
EGAF50000256592 fastq.gz 4.1 GB
EGAF50000256593 fastq.gz 4.0 GB
EGAF50000256594 fastq.gz 3.0 GB
EGAF50000256595 fastq.gz 3.0 GB
EGAF50000256596 fastq.gz 3.1 GB
EGAF50000256597 fastq.gz 3.1 GB
EGAF50000256598 fastq.gz 4.0 GB
EGAF50000256599 fastq.gz 3.9 GB
EGAF50000256600 fastq.gz 13.1 GB
EGAF50000256601 fastq.gz 13.2 GB
EGAF50000256602 fastq.gz 6.6 GB
EGAF50000256603 fastq.gz 6.8 GB
EGAF50000256604 fastq.gz 4.2 GB
EGAF50000256605 fastq.gz 4.2 GB
EGAF50000256606 fastq.gz 4.6 GB
EGAF50000256607 fastq.gz 4.6 GB
EGAF50000256608 fastq.gz 6.3 GB
EGAF50000256609 fastq.gz 6.3 GB
EGAF50000256610 fastq.gz 2.9 GB
EGAF50000256611 fastq.gz 2.8 GB
EGAF50000256612 fastq.gz 4.9 GB
EGAF50000256613 fastq.gz 4.8 GB
EGAF50000256614 fastq.gz 1.9 GB
EGAF50000256615 fastq.gz 1.9 GB
EGAF50000256616 fastq.gz 1.7 GB
EGAF50000256617 fastq.gz 1.7 GB
EGAF50000256618 fastq.gz 3.8 GB
EGAF50000256619 fastq.gz 3.7 GB
EGAF50000256620 fastq.gz 4.5 GB
EGAF50000256621 fastq.gz 4.6 GB
EGAF50000256622 fastq.gz 4.0 GB
EGAF50000256623 fastq.gz 4.0 GB
EGAF50000256624 fastq.gz 8.1 GB
EGAF50000256625 fastq.gz 8.3 GB
EGAF50000256626 fastq.gz 3.9 GB
EGAF50000256627 fastq.gz 3.9 GB
EGAF50000256628 fastq.gz 2.6 GB
EGAF50000256629 fastq.gz 2.6 GB
EGAF50000256630 fastq.gz 4.3 GB
EGAF50000256631 fastq.gz 4.3 GB
EGAF50000256632 fastq.gz 4.4 GB
EGAF50000256633 fastq.gz 4.3 GB
EGAF50000256634 fastq.gz 3.7 GB
EGAF50000256635 fastq.gz 3.8 GB
EGAF50000256636 fastq.gz 3.4 GB
EGAF50000256637 fastq.gz 3.5 GB
EGAF50000256638 fastq.gz 6.7 GB
EGAF50000256639 fastq.gz 6.6 GB
EGAF50000256640 fastq.gz 4.4 GB
EGAF50000256641 fastq.gz 4.4 GB
EGAF50000256642 fastq.gz 10.6 GB
EGAF50000256643 fastq.gz 10.5 GB
EGAF50000256644 fastq.gz 10.4 GB
EGAF50000256645 fastq.gz 10.8 GB
EGAF50000256646 fastq.gz 2.2 GB
EGAF50000256647 fastq.gz 2.2 GB
EGAF50000256648 fastq.gz 10.6 GB
EGAF50000256649 fastq.gz 10.2 GB
EGAF50000256650 fastq.gz 9.1 GB
EGAF50000256651 fastq.gz 8.9 GB
EGAF50000256652 fastq.gz 9.4 GB
EGAF50000256653 fastq.gz 9.6 GB
EGAF50000256654 fastq.gz 9.0 GB
EGAF50000256655 fastq.gz 9.1 GB
EGAF50000256656 fastq.gz 11.2 GB
EGAF50000256657 fastq.gz 11.3 GB
EGAF50000256658 fastq.gz 8.7 GB
EGAF50000256659 fastq.gz 8.4 GB
EGAF50000256660 fastq.gz 3.9 GB
EGAF50000256661 fastq.gz 3.9 GB
EGAF50000256662 fastq.gz 5.0 GB
EGAF50000256663 fastq.gz 5.0 GB
EGAF50000256664 fastq.gz 4.3 GB
EGAF50000256665 fastq.gz 4.2 GB
EGAF50000256666 fastq.gz 3.5 GB
EGAF50000256667 fastq.gz 3.5 GB
EGAF50000256668 fastq.gz 4.5 GB
EGAF50000256669 fastq.gz 4.6 GB
EGAF50000256670 fastq.gz 7.4 GB
EGAF50000256671 fastq.gz 7.5 GB
EGAF50000256672 fastq.gz 6.9 GB
EGAF50000256673 fastq.gz 7.1 GB
EGAF50000256674 fastq.gz 7.6 GB
EGAF50000256675 fastq.gz 7.8 GB
EGAF50000256676 fastq.gz 5.0 GB
EGAF50000256677 fastq.gz 5.1 GB
EGAF50000256678 fastq.gz 7.5 GB
EGAF50000256679 fastq.gz 7.6 GB
EGAF50000256680 fastq.gz 7.2 GB
EGAF50000256681 fastq.gz 7.4 GB
EGAF50000256682 fastq.gz 4.6 GB
EGAF50000256683 fastq.gz 4.8 GB
254 Files (1.2 TB)