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Molecular characterization of NASH-HCC

We collected 80 NASH-HCCs formalin fixed paraffin-embedded (FFPE) samples from 5 different institutions. NASH was diagnosed in FFPE samples by at least two expert pathologists following a described histological algorithm (Bedossa et al., Hepatology, 2012). All NASH patients included in the study were HBV- and HCV-negative. Patients reporting alcohol consumption ≥ 20 g/day for women and 30 g/day for men, as well as patients with a known liver disease superimposed to NASH were excluded. Tumour and paired non-tumour gDNA of NASH-HCC FFPE samples was submitted to Whole Exome Sequencing (WES). Exome capture and sequencing library preparation were performed using the SureSelect Human All Exon V5, no UTR hybridization capture kit from Agilent (Target Size 50 Mb). Libraries were sequenced on an Illumina HiSeq 4000 instrument with 100-bp paired-end reads.

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The Laboratory of Translational Research in Hepatic Oncology at IDIBAPs will conform the DAC for this dataset.

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 IDIBAPS within 30 days of any changes or departures of Authorised Personnel. 13. The User Institution will notify IDIBAPS prior to any significant changes to the protocol for the Project. 14. The User Institution will notify IDIBAPS as soon as it becomes aware of a breach of the terms or conditions of this agreement. 15. IDIBAPS 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 IDIBAPS. 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 Spain and shall be subject to the exclusive jurisdiction of the Spanish 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
EGAF00005198420 1618592176935 9.0 GB
EGAF00005198421 1618608913839 10.5 GB
EGAF00005198422 1618591234975 2.3 GB
EGAF00005198423 1618594452738 2.6 GB
EGAF00005198424 1618591142166 2.3 GB
EGAF00005198425 1618594268880 2.7 GB
EGAF00005198426 1618594452738 2.7 GB
EGAF00005198427 1618593034125 2.5 GB
EGAF00005198428 1618592053853 2.3 GB
EGAF00005198429 1618597093962 2.6 GB
EGAF00005198430 1618607318183 8.7 GB
EGAF00005198431 1618600917468 9.8 GB
EGAF00005198432 1618613671068 9.7 GB
EGAF00005198433 1618609693953 10.9 GB
EGAF00005198434 1618597027647 2.8 GB
EGAF00005198435 1618588684813 3.2 GB
EGAF00005198436 1618602637584 9.1 GB
EGAF00005198437 1618596390613 10.4 GB
EGAF00005198438 1618594048298 3.0 GB
EGAF00005198439 1618594107887 3.4 GB
EGAF00005198440 1618609467554 7.9 GB
EGAF00005198441 1618594795480 8.8 GB
EGAF00005198442 1618612122893 9.3 GB
EGAF00005198443 1618598759513 10.5 GB
EGAF00005198444 1618593136491 2.5 GB
EGAF00005198445 1618595077715 2.9 GB
EGAF00005198446 1618598146290 2.7 GB
EGAF00005198447 1618595010463 3.1 GB
EGAF00005198448 1618600661257 8.0 GB
EGAF00005198449 1618592053853 9.1 GB
EGAF00005198450 1618587635002 2.5 GB
EGAF00005198451 1618593713400 2.7 GB
EGAF00005198452 1618589211506 2.9 GB
EGAF00005198453 1618588395580 3.2 GB
EGAF00005198454 1618605198646 9.6 GB
EGAF00005198455 1618602637584 11.0 GB
EGAF00005198456 1618611385487 9.0 GB
EGAF00005198457 1618610299953 10.0 GB
EGAF00005198458 1618604417405 8.7 GB
EGAF00005198459 1618593859744 9.8 GB
EGAF00005198460 1618600661257 8.3 GB
EGAF00005198461 1618606755560 9.2 GB
EGAF00005198462 1618590455797 3.2 GB
EGAF00005198463 1618590738415 3.5 GB
EGAF00005198464 1618593859744 10.1 GB
EGAF00005198465 1618604492627 11.8 GB
EGAF00005198466 1618600181391 10.4 GB
EGAF00005198467 1618605917812 11.5 GB
EGAF00005198468 1618588684813 3.1 GB
EGAF00005198469 1618594354335 3.6 GB
EGAF00005198470 1618592053853 3.5 GB
EGAF00005198471 1618589211506 3.9 GB
EGAF00005198472 1618607318184 9.2 GB
EGAF00005198473 1618599346769 9.5 GB
EGAF00005198474 1618597303668 2.6 GB
EGAF00005198475 1618596890136 2.8 GB
EGAF00005198476 1618597391841 3.5 GB
EGAF00005198477 1618596390613 3.9 GB
EGAF00005198478 1618588336852 3.0 GB
EGAF00005198479 1618591908043 3.3 GB
EGAF00005198480 1618603826220 11.1 GB
EGAF00005198481 1618600661257 12.5 GB
EGAF00005198482 1618591908044 2.5 GB
EGAF00005198483 1618597355768 2.9 GB
EGAF00005198484 1618613361010 10.4 GB
EGAF00005198485 1618602992797 11.9 GB
EGAF00005198486 1618615712451 14.9 GB
EGAF00005198487 1618620382395 17.6 GB
EGAF00005198488 1618587922336 3.0 GB
EGAF00005198489 1618592053853 3.4 GB
EGAF00005198490 1618595972192 8.9 GB
EGAF00005198491 1618611058093 9.7 GB
EGAF00005198492 1618591757727 3.2 GB
EGAF00005198493 1618596390613 3.5 GB
EGAF00005198494 1618613054071 9.5 GB
EGAF00005198495 1618612122893 10.5 GB
EGAF00005198496 1618595513545 3.6 GB
EGAF00005198497 1618597212996 4.2 GB
EGAF00005198498 1618598608451 3.3 GB
EGAF00005198499 1618590455797 3.6 GB
EGAF00005198500 1618609090443 8.3 GB
EGAF00005198501 1618609090442 9.2 GB
EGAF00005198502 1618595204196 9.1 GB
EGAF00005198503 1618598001228 10.0 GB
EGAF00005198504 1618598608451 3.0 GB
EGAF00005198505 1618592053853 3.3 GB
EGAF00005198506 1618593464102 2.8 GB
EGAF00005198507 1618594268880 3.2 GB
EGAF00005198508 1618597303668 10.8 GB
EGAF00005198509 1618611058092 11.8 GB
EGAF00005198510 1618602544173 10.5 GB
EGAF00005198511 1618603670585 12.1 GB
EGAF00005198512 1618595321475 3.7 GB
EGAF00005198513 1618595809176 4.2 GB
EGAF00005198514 1618589211506 2.6 GB
EGAF00005198515 1618588062197 3.0 GB
EGAF00005198516 1618597472373 10.9 GB
EGAF00005198517 1618599346769 12.6 GB
EGAF00005198518 1618587975544 2.8 GB
EGAF00005198519 1618598517231 3.2 GB
EGAF00005198520 1618608264613 9.2 GB
EGAF00005198521 1618613831286 10.7 GB
EGAF00005198522 1618590455797 8.5 GB
EGAF00005198523 1618611058092 9.4 GB
EGAF00005198524 1618589810575 3.4 GB
EGAF00005198525 1618595809176 3.8 GB
EGAF00005198526 1618593618708 2.5 GB
EGAF00005198527 1618589701937 2.8 GB
EGAF00005198528 1618602195096 10.9 GB
EGAF00005198529 1618598759513 12.7 GB
EGAF00005198530 1618588280973 2.3 GB
EGAF00005198531 1618587635002 2.7 GB
EGAF00005198532 1618597212996 8.3 GB
EGAF00005198533 1618611058092 9.6 GB
EGAF00005198534 1618590738416 3.4 GB
EGAF00005198535 1618589211505 4.0 GB
EGAF00005198536 1618603149454 11.4 GB
EGAF00005198537 1618598759513 13.3 GB
EGAF00005198538 1618597592415 2.8 GB
EGAF00005198539 1618587975544 3.1 GB
EGAF00005198540 1618589211505 3.8 GB
EGAF00005198541 1618595903964 4.2 GB
EGAF00005198542 1618598275812 6.5 GB
EGAF00005198543 1618594696726 7.4 GB
EGAF00005198544 1618609166723 10.7 GB
EGAF00005198545 1618605826806 11.7 GB
EGAF00005198546 1618609166723 7.1 GB
EGAF00005198547 1618600791307 7.9 GB
EGAF00005198548 1618594795480 3.4 GB
EGAF00005198549 1618603149454 3.7 GB
EGAF00005198550 1618598066664 5.9 GB
EGAF00005198551 1618607950265 6.3 GB
132 Files (864.9 GB)