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NGS-ProToCol prostate cancer RNA-seq data.

NGS-ProToCol RNA-seq dataset contains 41x normal adjacent prostate and 51x prostate cancer samples taken from fresh frozen radical prostatectomies, sequenced using random-hexamer priming. RNA-seq was performed on the Illumina HiSeq 2500 platform, 2 x 126 bp stranded paired-end reads at a depth of 70 mln reads.

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This agreement governs the terms on which access will be granted to the genotype data generated by the NGS-ProToCol (part of the CTMM) consortium.

THE NGS-ProToCol CONSORTIUM DATA ACCESS AGREEMENT This agreement governs the terms on which access will be granted to the genotype data generated by the NGS-ProToCol (part of the CTMM) consortium. In signing this agreement, You are agreeing to be bound by the terms and conditions of access set out in this agreement. For the sake of clarity, the terms of access set out in this agreement apply both to the User and the User’s Institution (as defined below). User Institution and User are referred to within the agreement as “You” and “Your” shall be construed accordingly. Definitions: Consortium means the NGS-ProToCol Consortium comprised out of the following members: Prof. Dr. Guido Jenster. Data means all and any human genetic/transcriptomic data obtained from the Consortium. Data Subject means a person, who has been informed of the purpose for which the Data is held and has given his/her informed consent thereto. User means a researcher whose User Institution has previously completed this Data Access Agreement and has received acknowledgement of its acceptance. Publications means, without limitation, articles published in print journals, electronic journals, reviews, books, posters and other written and verbal presentations of research. User Institution means the organization at which the User is employed, affiliated or enrolled. Terms and Conditions: In signing this Agreement: 1. You agree to use the Data only for the advancement of medical research, according to the consent obtained from sample donors. 2. You agree not to use the data from this cohort or any part thereof for the creation of products for sale or for any commercial purpose. 3. You agree to preserve, at all times, the confidentiality of information and Data pertaining to Data Subjects. In particular, 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. 4. You agree not to attempt to link the data provided under this agreement to other information or archive data available for the data sets provided, even if access to that data has been formally granted to you, or it is freely available without restriction, without specific permission being sought from the relevant access committees. 5. You agree not to transfer or disclose the Data, in whole or part, or any identifiable material derived from the Data, to others, except as necessary for data/safety monitoring or programme management. Should You wish to share the Data with a collaborator within the same Institution, the third party must make a separate application for access to the Data. 6. You agree to use the data for the approved purpose and project described in your application; use of the data for a new purpose or project will require a new application and approval. The relevant access committees will see to it that the Data is not used in publications outside the project described in the original application. 7. You accept that Data will be reissued from time to time, with suitable versioning. If the reissue is at the request of sample donors and/or other ethical scrutiny, You will destroy earlier versions of the Data. 8. You agree to abide by the terms outlined in the Consortium 'Publications Policy' as set out in Schedule 1. 9. You agree to acknowledge in any work based in whole or part on the Data, the published paper from which the Data derives, the version of the data, and the role of the Consortium and the relevant primary collectors and their funders. Suitable wording is provided in the Publications Policy given in Schedule 1. 10. You accept that the Consortium, the original data creators, depositors or copyright holders, or the funders of the Data or any part of the Data supplied: a) bear no legal responsibility for the accuracy or comprehensiveness of the Data; and b) accept no liability for indirect, consequential, or incidental, damages or losses arising from use of the Data, or from the unavailability of, or break in access to, the Data for whatever reason. 11. You understand and acknowledge that the Data is protected by copyright and other intellectual property rights, and that duplication, except as reasonably required to carry out Your research with the Data, or sale of all or part of the Data on any media is not permitted. 12. You recognize that nothing in this agreement shall operate to transfer to the User Institution any intellectual property rights relating to the Data. The User Institution has the right to develop intellectual property based on comparisons with their own data. 13. You accept that this agreement will terminate immediately upon any breach of this agreement by You and You will be required to destroy any Data held. 14. You accept that it may be necessary for the Consortium or its appointed agent to alter the terms of this agreement from time to time in order to address new concerns. In this event, the Consortium or its appointed agent will contact You to inform You of any changes and You agree that Your continued use of the Data shall be dependent on the parties entering into a new version of the Agreement. 15. You agree that you will submit a report to the Consortium Data Access Committee, if requested, on completion of the agreed purpose. The Consortium Data Access Committee agrees to treat the report and all information, data, results, and conclusions contained within such report as confidential information belonging to the User Institution. 16. You accept that the Data is protected by and subject to international laws, and that You are responsible for ensuring compliance with any such applicable law. The Consortium Data Access Committee reserves the right to request and inspect data security and management documentation to ensure the adequacy of data protection measures in countries that have no national laws comparable to that which pertain in the EAA. 17. This agreement shall be construed, interpreted and governed by the laws of the Netherlands and shall be subject to the non-exclusive jurisdiction of the Dutch courts. SCHEDULE 1 Publications Policy The primary purpose of the NGS-ProToCol Consortium (NGS-ProToCol) is to accelerate efforts to identify genome/transcriptome sequence variants in prostate cancer and colorectal cancer, through implementation and analysis of large-scale genome-wide association studies. Additional objectives include the development and validation of informatics and analytical solutions appropriate to the scale and nature of the project, as well as use of the data generated to answer important methodological and biological questions relevant to association studies in general, and in the Netherlands in particular. The Consortium anticipates that data generated from the project will be used by others, such as required for developing new analytical methods, in understanding patterns of expression, structural variants, polymorphism and in guiding selection of markers to map genes involved in specific diseases. Authors who use data from the project must acknowledge the NGS-ProToCol using the following wording "This study makes use of data generated by the NGS-ProToCol Consortium. Cite the relevant primary NGS-ProToCol publication”. Users should note that the Consortium bears no responsibility for the further analysis or interpretation of these data, over and above that published by the Consortium. The following pre-printed manuscript must be referenced in publications using these data: Detection of fusion transcripts and their genomic breakpoints from RNA sequencing data Youri Hoogstrate, Malgorzata A. Komor, René Böttcher, Job van Riet, Harmen J. G. van de Werken, Stef van Lieshout, Ralf Hoffmann, Evert van den Broek, Anne S. Bolijn, Natasja Dits, Daoud Sie, David van der Meer, Floor Pepers, Chris H. Bangma, Geert J. L. H. van Leenders, Marcel Smid, Pim French, John W.M. Martens, Wilbert van Workum, Peter J. van der Spek, Bart Janssen, Eric Caldenhoven, Christian Rausch, Mark de Jong, Andrew P. Stubbs, Gerrit A. Meijer, Remond J.A. Fijneman, Guido Jenster bioRxiv 2021.05.17.441778; doi: https://doi.org/10.1101/2021.05.17.441778 https://www.biorxiv.org/content/10.1101/2021.05.17.441778v1

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
EGAF00002005359 fastq.gz 6.7 GB
EGAF00002005360 fastq.gz 6.7 GB
EGAF00002005361 fastq.gz 5.9 GB
EGAF00002005362 fastq.gz 6.1 GB
EGAF00002005363 fastq.gz 6.5 GB
EGAF00002005364 fastq.gz 6.6 GB
EGAF00002005365 fastq.gz 6.9 GB
EGAF00002005366 fastq.gz 7.0 GB
EGAF00002005367 fastq.gz 5.9 GB
EGAF00002005368 fastq.gz 6.2 GB
EGAF00002005369 fastq.gz 6.2 GB
EGAF00002005370 fastq.gz 6.2 GB
EGAF00002005371 fastq.gz 6.8 GB
EGAF00002005372 fastq.gz 7.0 GB
EGAF00002005373 fastq.gz 6.3 GB
EGAF00002005374 fastq.gz 6.4 GB
EGAF00002005375 fastq.gz 6.3 GB
EGAF00002005376 fastq.gz 6.4 GB
EGAF00002005377 fastq.gz 7.0 GB
EGAF00002005378 fastq.gz 7.6 GB
EGAF00002005379 fastq.gz 5.8 GB
EGAF00002005380 fastq.gz 6.0 GB
EGAF00002005381 fastq.gz 9.5 GB
EGAF00002005382 fastq.gz 9.9 GB
EGAF00002005383 fastq.gz 6.4 GB
EGAF00002005384 fastq.gz 6.8 GB
EGAF00002005385 fastq.gz 6.5 GB
EGAF00002005386 fastq.gz 6.7 GB
EGAF00002005387 fastq.gz 6.2 GB
EGAF00002005388 fastq.gz 6.7 GB
EGAF00002005389 fastq.gz 6.9 GB
EGAF00002005390 fastq.gz 7.4 GB
EGAF00002005391 fastq.gz 6.7 GB
EGAF00002005392 fastq.gz 6.7 GB
EGAF00002005393 fastq.gz 7.0 GB
EGAF00002005394 fastq.gz 7.3 GB
EGAF00002005395 fastq.gz 6.9 GB
EGAF00002005396 fastq.gz 6.9 GB
EGAF00002005397 fastq.gz 6.9 GB
EGAF00002005398 fastq.gz 7.1 GB
EGAF00002005399 fastq.gz 7.1 GB
EGAF00002005400 fastq.gz 7.3 GB
EGAF00002005401 fastq.gz 6.2 GB
EGAF00002005402 fastq.gz 6.2 GB
EGAF00002005403 fastq.gz 6.5 GB
EGAF00002005404 fastq.gz 6.6 GB
EGAF00002005405 fastq.gz 6.5 GB
EGAF00002005406 fastq.gz 6.7 GB
EGAF00002005407 fastq.gz 13.7 GB
EGAF00002005408 fastq.gz 13.9 GB
EGAF00002005409 fastq.gz 6.3 GB
EGAF00002005410 fastq.gz 6.3 GB
EGAF00002005411 fastq.gz 6.3 GB
EGAF00002005412 fastq.gz 6.3 GB
EGAF00002005413 fastq.gz 6.3 GB
EGAF00002005414 fastq.gz 6.4 GB
EGAF00002005415 fastq.gz 6.1 GB
EGAF00002005416 fastq.gz 6.5 GB
EGAF00002005417 fastq.gz 6.3 GB
EGAF00002005418 fastq.gz 6.2 GB
EGAF00002005419 fastq.gz 6.5 GB
EGAF00002005420 fastq.gz 6.4 GB
EGAF00002005421 fastq.gz 6.2 GB
EGAF00002005422 fastq.gz 6.4 GB
EGAF00002005423 fastq.gz 6.2 GB
EGAF00002005424 fastq.gz 6.3 GB
EGAF00002005425 fastq.gz 5.7 GB
EGAF00002005426 fastq.gz 5.9 GB
EGAF00002005427 fastq.gz 6.5 GB
EGAF00002005428 fastq.gz 6.5 GB
EGAF00002005429 fastq.gz 6.3 GB
EGAF00002005430 fastq.gz 6.4 GB
EGAF00002005431 fastq.gz 6.1 GB
EGAF00002005432 fastq.gz 6.3 GB
EGAF00002005433 fastq.gz 6.5 GB
EGAF00002005434 fastq.gz 6.4 GB
EGAF00002005435 fastq.gz 6.2 GB
EGAF00002005436 fastq.gz 6.3 GB
EGAF00002005437 fastq.gz 6.4 GB
EGAF00002005438 fastq.gz 6.6 GB
EGAF00002005439 fastq.gz 6.6 GB
EGAF00002005440 fastq.gz 6.7 GB
EGAF00002005441 fastq.gz 5.9 GB
EGAF00002005442 fastq.gz 6.2 GB
EGAF00002005443 fastq.gz 6.1 GB
EGAF00002005444 fastq.gz 6.2 GB
EGAF00002005445 fastq.gz 6.3 GB
EGAF00002005446 fastq.gz 6.5 GB
EGAF00002005447 fastq.gz 6.2 GB
EGAF00002005448 fastq.gz 6.4 GB
EGAF00002005449 fastq.gz 6.7 GB
EGAF00002005450 fastq.gz 6.7 GB
EGAF00002005451 fastq.gz 6.5 GB
EGAF00002005452 fastq.gz 6.7 GB
EGAF00002005453 fastq.gz 6.2 GB
EGAF00002005454 fastq.gz 6.5 GB
EGAF00002005455 fastq.gz 6.3 GB
EGAF00002005456 fastq.gz 6.5 GB
EGAF00002005457 fastq.gz 7.1 GB
EGAF00002005458 fastq.gz 7.5 GB
EGAF00002005459 fastq.gz 6.4 GB
EGAF00002005460 fastq.gz 6.5 GB
EGAF00002005461 fastq.gz 6.5 GB
EGAF00002005462 fastq.gz 6.8 GB
EGAF00002005463 fastq.gz 6.3 GB
EGAF00002005464 fastq.gz 6.6 GB
EGAF00002005465 fastq.gz 6.4 GB
EGAF00002005466 fastq.gz 6.5 GB
EGAF00002005467 fastq.gz 6.1 GB
EGAF00002005468 fastq.gz 6.5 GB
EGAF00002005469 fastq.gz 6.9 GB
EGAF00002005470 fastq.gz 7.3 GB
EGAF00002005471 fastq.gz 6.3 GB
EGAF00002005472 fastq.gz 6.4 GB
EGAF00002005473 fastq.gz 6.3 GB
EGAF00002005474 fastq.gz 6.5 GB
EGAF00002005475 fastq.gz 7.2 GB
EGAF00002005476 fastq.gz 7.3 GB
EGAF00002005477 fastq.gz 7.3 GB
EGAF00002005478 fastq.gz 7.7 GB
EGAF00002005479 fastq.gz 6.8 GB
EGAF00002005480 fastq.gz 7.0 GB
EGAF00002005481 fastq.gz 7.0 GB
EGAF00002005482 fastq.gz 7.5 GB
EGAF00002005483 fastq.gz 6.7 GB
EGAF00002005484 fastq.gz 7.1 GB
EGAF00002005485 fastq.gz 6.8 GB
EGAF00002005486 fastq.gz 6.9 GB
EGAF00002005487 fastq.gz 6.3 GB
EGAF00002005488 fastq.gz 6.6 GB
EGAF00002005489 fastq.gz 6.5 GB
EGAF00002005490 fastq.gz 6.8 GB
EGAF00002005491 fastq.gz 7.7 GB
EGAF00002005492 fastq.gz 7.7 GB
EGAF00002005493 fastq.gz 6.5 GB
EGAF00002005494 fastq.gz 6.7 GB
EGAF00002005495 fastq.gz 7.0 GB
EGAF00002005496 fastq.gz 7.0 GB
EGAF00002005497 fastq.gz 7.3 GB
EGAF00002005498 fastq.gz 7.7 GB
EGAF00002005499 fastq.gz 7.6 GB
EGAF00002005500 fastq.gz 7.7 GB
EGAF00002005501 fastq.gz 6.3 GB
EGAF00002005502 fastq.gz 6.3 GB
EGAF00002005503 fastq.gz 6.3 GB
EGAF00002005504 fastq.gz 6.5 GB
EGAF00002005505 fastq.gz 6.2 GB
EGAF00002005506 fastq.gz 6.4 GB
EGAF00002005507 fastq.gz 7.1 GB
EGAF00002005508 fastq.gz 7.2 GB
EGAF00002005509 fastq.gz 6.6 GB
EGAF00002005510 fastq.gz 6.9 GB
EGAF00002005511 fastq.gz 6.4 GB
EGAF00002005512 fastq.gz 6.6 GB
EGAF00002005513 fastq.gz 6.4 GB
EGAF00002005514 fastq.gz 6.7 GB
EGAF00002005515 fastq.gz 6.5 GB
EGAF00002005516 fastq.gz 6.7 GB
EGAF00002005517 fastq.gz 7.2 GB
EGAF00002005518 fastq.gz 7.3 GB
EGAF00002005519 fastq.gz 6.4 GB
EGAF00002005520 fastq.gz 6.8 GB
EGAF00002005521 fastq.gz 6.7 GB
EGAF00002005522 fastq.gz 7.0 GB
EGAF00002005523 fastq.gz 6.0 GB
EGAF00002005524 fastq.gz 6.1 GB
EGAF00002005525 fastq.gz 6.1 GB
EGAF00002005526 fastq.gz 6.3 GB
EGAF00002005527 fastq.gz 6.5 GB
EGAF00002005528 fastq.gz 6.6 GB
EGAF00002005529 fastq.gz 7.1 GB
EGAF00002005530 fastq.gz 7.4 GB
EGAF00002005531 fastq.gz 8.6 GB
EGAF00002005532 fastq.gz 8.9 GB
EGAF00002005533 fastq.gz 7.1 GB
EGAF00002005534 fastq.gz 7.2 GB
EGAF00002005535 fastq.gz 6.2 GB
EGAF00002005536 fastq.gz 6.5 GB
EGAF00002005537 fastq.gz 6.9 GB
EGAF00002005538 fastq.gz 7.2 GB
EGAF00002005539 fastq.gz 6.8 GB
EGAF00002005540 fastq.gz 6.7 GB
EGAF00002005541 fastq.gz 6.1 GB
EGAF00002005542 fastq.gz 6.3 GB
184 Files (1.2 TB)