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The polarity and specificity of antiviral T lymphocyte responses determine susceptibility to SARS-CoV-2 infection in cancer patients and healthy individuals

We monitored patient's anti SARS-CoV-2 immune responses using an in vitro cross presentation assay. The goal of this study was to identify immune correlates of clinical protection against SARS-CoV-2 infection. Briefly, peripheral blood mononuclear cells of patient were divided into a monocyte and lymphocyte. Monocyte were differentiated into monocyte derived dendritic (mo-DC)cells using GM-CSF and Interferon alpha. Mo-DC were then loaded with SARS-CoV-2 culture lysates , or VeroE86 lysates. SARS-CoV-2 loaded mo-DC were then used to stimulates their autologous lymphocytes and T cell cytokine secretion was monitored in the supernatant. We discriminated patients producing IL-2 and patients producing IL-5. RNA sequencing was performed for 18 patients, to identify gene profile associated with IL-2 or IL-5 production.

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Data Access Policy of The polarity and specificity of antiviral T lymphocyte responses determine susceptibility to SARS-CoV-2 infection in cancer patients and healthy individuals

DATA ACCESS AGREEMENT 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 (http://www.wellcome.ac.uk/stellent/groups/corporatesite/@policy_communications/documents/web_document/wtd003207.pdf ) and the Toronto Statement (http://www.nature.com/nature/journal/v461/n7261/full/461168a.html). 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) (https://www.icgc.org/files/daco/NIH_BestPracticesLicensingGenomicInventions_2005_en.pdf ) in conformity with the Organisation for Economic Co-operation and Development Guidelines for the Licensing of the Genetic Inventions (2006) (http://www.oecd.org/science/biotech/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 Dr Françoise Farace at Gustave Roussy within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify Dr Françoise Farace at Gustave Roussy prior to any significant changes to the protocol for the Project. 14. The User Institution will notify Dr Françoise Farace at Gustave Roussy as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. Dr Françoise Farace at Gustave Roussy 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 Dr Françoise Farace at Gustave Roussy. 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.

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
EGAS00001005985 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
EGAF00005791396 fastq.gz 4.1 GB
EGAF00005791397 fastq.gz 4.2 GB
EGAF00005791398 fastq.gz 6.2 GB
EGAF00005791399 fastq.gz 6.4 GB
EGAF00005791400 fastq.gz 3.5 GB
EGAF00005791401 fastq.gz 3.5 GB
EGAF00005791402 fastq.gz 25.2 GB
EGAF00005791403 fastq.gz 26.0 GB
EGAF00005791404 fastq.gz 3.7 GB
EGAF00005791405 fastq.gz 3.7 GB
EGAF00005791406 fastq.gz 3.3 GB
EGAF00005791407 fastq.gz 3.4 GB
EGAF00005791408 fastq.gz 1.8 GB
EGAF00005791409 fastq.gz 1.9 GB
EGAF00005791410 fastq.gz 2.8 GB
EGAF00005791411 fastq.gz 3.1 GB
EGAF00005791412 fastq.gz 1.3 GB
EGAF00005791413 fastq.gz 1.3 GB
EGAF00005791414 fastq.gz 4.0 GB
EGAF00005791415 fastq.gz 4.1 GB
EGAF00005791416 fastq.gz 1.7 GB
EGAF00005791417 fastq.gz 1.7 GB
EGAF00005791418 fastq.gz 3.5 GB
EGAF00005791419 fastq.gz 3.6 GB
EGAF00005791420 fastq.gz 1.7 GB
EGAF00005791421 fastq.gz 1.7 GB
EGAF00005791422 fastq.gz 2.4 GB
EGAF00005791423 fastq.gz 2.5 GB
EGAF00005791424 fastq.gz 1.3 GB
EGAF00005791425 fastq.gz 1.3 GB
EGAF00005791426 fastq.gz 1.9 GB
EGAF00005791427 fastq.gz 2.0 GB
EGAF00005791428 fastq.gz 1.8 GB
EGAF00005791429 fastq.gz 1.9 GB
EGAF00005791430 fastq.gz 2.6 GB
EGAF00005791431 fastq.gz 2.9 GB
EGAF00005791432 fastq.gz 1.7 GB
EGAF00005791433 fastq.gz 1.7 GB
EGAF00005791434 fastq.gz 2.9 GB
EGAF00005791435 fastq.gz 3.0 GB
EGAF00005791436 fastq.gz 4.7 GB
EGAF00005791437 fastq.gz 4.7 GB
EGAF00005791438 fastq.gz 6.1 GB
EGAF00005791439 fastq.gz 6.2 GB
EGAF00005791440 fastq.gz 4.7 GB
EGAF00005791441 fastq.gz 4.9 GB
EGAF00005791442 fastq.gz 5.0 GB
EGAF00005791443 fastq.gz 5.0 GB
EGAF00005791444 fastq.gz 2.4 GB
EGAF00005791445 fastq.gz 2.6 GB
EGAF00005791446 fastq.gz 1.4 GB
EGAF00005791447 fastq.gz 1.5 GB
EGAF00005791448 fastq.gz 1.7 GB
EGAF00005791449 fastq.gz 1.7 GB
EGAF00005791450 fastq.gz 4.2 GB
EGAF00005791451 fastq.gz 4.3 GB
EGAF00005791452 fastq.gz 3.8 GB
EGAF00005791453 fastq.gz 3.9 GB
EGAF00005791454 fastq.gz 4.4 GB
EGAF00005791455 fastq.gz 4.4 GB
EGAF00005791456 fastq.gz 3.7 GB
EGAF00005791457 fastq.gz 3.8 GB
EGAF00005791458 fastq.gz 6.1 GB
EGAF00005791459 fastq.gz 6.2 GB
EGAF00005791460 fastq.gz 4.8 GB
EGAF00005791461 fastq.gz 4.9 GB
EGAF00005791466 fastq.gz 4.8 GB
EGAF00005791467 fastq.gz 4.9 GB
EGAF00005791468 fastq.gz 4.7 GB
EGAF00005791469 fastq.gz 4.8 GB
EGAF00005791470 fastq.gz 6.6 GB
EGAF00005791471 fastq.gz 6.8 GB
72 Files (297.0 GB)