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Healthy control and lung cancer plasma cfDNA samples from various collection tubes

The dataset contains 6 lung cancer and 60 healthy control plasma cfDNA samples collected in EDTA, PAXGene and Norgen blood collection tubes at various locations. Shallow WGS was performed on an Illumina Novaseq S4 PE150bp. Samples are provided as raw reads without any prior processing.

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DAP for FMseq_EGA_003

Data Access Policy Form – Mouliere Lab, Vrije University Medical Center Amsterdam These terms and conditions govern access to and use of the managed access datasets to which the User Institution has requested access. The User Institution and User agree to be bound by these terms and conditions. The current text is just the first part of the DAP. Please download and fill in the full version from the link provided! Definitions: Confidential Information: means any information provided by the Data Provider relating to the Data Data: The managed access dataset(s) to which the User Institution has requested access, as detailed in Schedule B. Data Provider: The Amsterdam University Medical Center, location VUmc, De Boelelaan 1118, 1081 HZ Amsterdam; represented by Florent C. Mouliere, and contactable by email at f.mouliere@amsterdamumc.nl or future email as updated; or future representatives as indicated in Data Access Committee(s) for the dataset(s) defined in Schedule B. Data Subject: means an individual who participated in research studies from whom the Data was derived. External Collaborator: A collaborator of the User, working for an institution other than the User Institution. Personal Data: means information and/or data about one or more living person who is the subject of personal data and who can be identified from that information, as provided under the General Data Protection Regulation (EU) 2016/679 (as amended from time to time), including but not limited to surname, initials, date of birth, address and postcodes, national insurance number or hospital number. Project: The research project for which the User Institution has requested access to these Data, as defined in Schedule B. Publications: Includes, without limitation, articles published in print journals, electronic journals, reviews, books, posters and other written and verbal presentations of research. User: The principal investigator for the Project. User Institution(s): The Institution that has requested access to the Data. User Institution is referred to within this Agreement as “You” (and “Your” shall be construed accordingly). Data Provider will provide access to Data to the User Institution under the following Terms and Conditions: You agree to preserve, at all times, the confidentiality and privacy 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 breach or infringe the confidentiality and privacy of information on Data Subjects. You agree to protect the confidentiality of Data Subjects in any Publications that you prepare by taking all reasonable care to limit the possibility of identification. You agree not to attempt to link Data to any other data source on the same samples, link the Data to any person or otherwise identify any Data Subject from the Data. You agree not to transfer or disclose the Data, in whole or part, to others, except to persons within the User Institution for carrying out the Project or as reasonably necessary for Data/safety monitoring or programme management. If You wish to disclose the Data to a collaborator outside the User Institution, the third party must make a separate application for access to the Data. You agree to use the Data for the advancement of medical research, and solely for the approved purpose and Project described in Schedule B and for no other purpose. You agree that Data may be reissued from time to time, with suitable versioning. If the reissue is at the request of Data Subjects and/or other ethical scrutiny or concerns, you will destroy earlier versions of the Data, and upon request of the Data Provider, provide written certification of such destruction. Your obligations as set out in this form pertaining to the Data and its use will continue to operate in full force and effect after Data is destroyed. You agree to acknowledge in any Publication and Communications based in whole or part on the Data, the published paper(s) from which the Data derives, and the version of the Data. You agree and acknowledge that the researchers of this study, the original Data creators, depositors, or copyright holders, and the Data Provider: a) bear no legal responsibility or liability for the accuracy or comprehensiveness of the Data, or from any use of the Data including further analysis or interpretation of such Data; and b) shall have no liability for any direct or indirect, consequential, or incidental damages or losses whatsoever arising out of Your use of the Data, or from the unavailability of, or lack of access to, the Data for whatever reason; and c) disclaim any and all representations, conditions or warranties (either express, implied or statutory) regarding the Data, including accuracy of the Data or that the Data corresponds with a particular description or is fit for a particular purpose. You understand and acknowledge that the Data is owned by Data Provider and its collaborators and is protected by copyright, database rights and other intellectual property rights. You agree that you shall not reproduce or copy the Data, except as reasonably required to carry out the Project and for no other purpose, or sell all or any part of the Data in any circumstances. You recognize that by granting You access to Data, no rights or ownership or intellectual property rights in or relating to the Data are transferred to You. Upon any breach by You of the terms set out in this form, You will be required to destroy the Data in Your possession, and upon request, provide written certification to the Data Provider of such destruction. Your obligations as set out in this form pertaining to the Data and its use will continue to operate in full force and effect after Data is destroyed. You accept that it may be necessary for the Data Provider to alter the terms of use of the Data from time to time. As an example, this may include specific provisions relating to the Data required by Data Provider or collaborator parties. In the event that changes are required, the Data Provider or their appointed agent will contact You to inform You of the changes and You may elect either to accept the changes or to destroy the Data in Your possession and cease its use. Your obligations as set out in this form pertaining to the Data and its use will continue to operate in full force and effect after Data is destroyed. You agree that the Data is protected by and subject to applicable international laws. You are responsible for ensuring compliance with any such laws. The Data Provider reserves the right to request and inspect Your data security and management documentation to ensure the adequacy and compliance of data protection measures pertaining to storage and use of Data. If the Data includes any identifiable Personal Data, You agree to: (a) take appropriate technical and organizational measures against the unauthorized or unlawful processing and/or use of the Data, any data derived from the Data and/or and all Confidential Information, against the accidental loss or destruction of, or damage to, such data and information. (b) ensure that the measures referred to in (a) shall include the measures set out in Schedule A. (c) restrict access to the Data, any data derived from the Data and all other Confidential Information to employees who strictly need access to such data and/or information to undertake the Project, and shall ensure that all such employees are reliable, and informed of the confidential nature of such data and/or information and the importance of processing it securely. (d) For the avoidance of doubt, You undertake not to disclose to a third party, whether in connection with the Project or otherwise, any data and/or information contained in or derived from the Data which constitutes Personal Data. Schedule A You acknowledge and agree that the Data is pseudonymized Data and that You will become the Data Controller on receipt of such Data. You will only process the Data for the purpose of carrying out the Project. You agree that safeguards required under Article 89(1) of GDPR, and relevant conditions under the Data Protection Act 2018, are satisfied, and in particular that: (i) the processing of Data under or in connection with this Agreement is in the public interest; and (ii) if applicable, the Project has been subject to ethical review by an appropriate institutional review board or independent ethics committee. The Data Provider does not intend to provide any information that may lead to You being able to identify any individual from whom any Data has been obtained. You agree that You shall not analyze or make any use of any Data where it is reasonably foreseeable that such analysis or use may lead to the identification of any Data Subject or compromise the anonymity of any Data Subject in any way. You shall notify the Data Provider immediately of any actual or suspected breach of security which involves the Data. Schedule B For schedule B please download the full version of this DAP from the link provided.

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
EGAS00001005748 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
EGAF00005578762 fastq.gz 434.0 MB
EGAF00005578763 fastq.gz 439.2 MB
EGAF00005578764 fastq.gz 750.5 MB
EGAF00005578765 fastq.gz 764.2 MB
EGAF00005578766 fastq.gz 7.3 GB
EGAF00005578767 fastq.gz 7.5 GB
EGAF00005578768 fastq.gz 93.2 MB
EGAF00005578769 fastq.gz 97.1 MB
EGAF00005578770 fastq.gz 99.0 MB
EGAF00005578771 fastq.gz 100.3 MB
EGAF00005578772 fastq.gz 141.5 MB
EGAF00005578773 fastq.gz 145.4 MB
EGAF00005578774 fastq.gz 59.5 MB
EGAF00005578775 fastq.gz 60.8 MB
EGAF00005578776 fastq.gz 190.7 MB
EGAF00005578777 fastq.gz 195.4 MB
EGAF00005578778 fastq.gz 5.4 GB
EGAF00005578779 fastq.gz 5.6 GB
EGAF00005578780 fastq.gz 141.0 MB
EGAF00005578781 fastq.gz 144.1 MB
EGAF00005578782 fastq.gz 141.7 MB
EGAF00005578783 fastq.gz 144.0 MB
EGAF00005578784 fastq.gz 188.1 MB
EGAF00005578785 fastq.gz 193.5 MB
EGAF00005578786 fastq.gz 224.0 MB
EGAF00005578787 fastq.gz 229.6 MB
EGAF00005578788 fastq.gz 8.8 GB
EGAF00005578789 fastq.gz 9.1 GB
EGAF00005578790 fastq.gz 56.1 MB
EGAF00005578791 fastq.gz 57.4 MB
EGAF00005578792 fastq.gz 219.4 MB
EGAF00005578793 fastq.gz 224.4 MB
EGAF00005578794 fastq.gz 1.2 GB
EGAF00005578795 fastq.gz 1.3 GB
EGAF00005578796 fastq.gz 7.4 GB
EGAF00005578797 fastq.gz 7.6 GB
EGAF00005578798 fastq.gz 102.2 MB
EGAF00005578799 fastq.gz 108.4 MB
EGAF00005578800 fastq.gz 187.9 MB
EGAF00005578801 fastq.gz 191.2 MB
EGAF00005578802 fastq.gz 92.4 MB
EGAF00005578803 fastq.gz 96.1 MB
EGAF00005578804 fastq.gz 202.6 MB
EGAF00005578805 fastq.gz 206.3 MB
EGAF00005578806 fastq.gz 44.0 MB
EGAF00005578807 fastq.gz 44.8 MB
EGAF00005578808 fastq.gz 112.0 MB
EGAF00005578809 fastq.gz 114.2 MB
EGAF00005578810 fastq.gz 150.1 MB
EGAF00005578811 fastq.gz 151.9 MB
EGAF00005578812 fastq.gz 190.7 MB
EGAF00005578813 fastq.gz 194.1 MB
EGAF00005578814 fastq.gz 446.9 MB
EGAF00005578815 fastq.gz 455.0 MB
EGAF00005578816 fastq.gz 51.3 MB
EGAF00005578817 fastq.gz 51.9 MB
EGAF00005578818 fastq.gz 277.1 MB
EGAF00005578819 fastq.gz 282.8 MB
EGAF00005578820 fastq.gz 494.2 MB
EGAF00005578821 fastq.gz 501.8 MB
EGAF00005578822 fastq.gz 3.4 GB
EGAF00005578823 fastq.gz 3.6 GB
EGAF00005578824 fastq.gz 311.6 MB
EGAF00005578825 fastq.gz 317.6 MB
EGAF00005578826 fastq.gz 124.9 MB
EGAF00005578827 fastq.gz 128.1 MB
EGAF00005578828 fastq.gz 869.4 MB
EGAF00005578829 fastq.gz 909.0 MB
EGAF00005578830 fastq.gz 3.3 GB
EGAF00005578831 fastq.gz 3.5 GB
EGAF00005578832 fastq.gz 248.4 MB
EGAF00005578833 fastq.gz 252.5 MB
EGAF00005578834 fastq.gz 3.2 GB
EGAF00005578835 fastq.gz 3.3 GB
EGAF00005578836 fastq.gz 440.7 MB
EGAF00005578837 fastq.gz 446.3 MB
EGAF00005578838 fastq.gz 61.2 MB
EGAF00005578839 fastq.gz 63.8 MB
EGAF00005578840 fastq.gz 115.9 MB
EGAF00005578841 fastq.gz 120.7 MB
EGAF00005578842 fastq.gz 59.9 MB
EGAF00005578843 fastq.gz 61.2 MB
EGAF00005578844 fastq.gz 878.9 MB
EGAF00005578845 fastq.gz 920.9 MB
EGAF00005578846 fastq.gz 10.5 GB
EGAF00005578847 fastq.gz 10.9 GB
EGAF00005578848 fastq.gz 6.4 GB
EGAF00005578849 fastq.gz 6.7 GB
EGAF00005578850 fastq.gz 169.1 MB
EGAF00005578851 fastq.gz 172.9 MB
EGAF00005578852 fastq.gz 224.4 MB
EGAF00005578853 fastq.gz 229.9 MB
EGAF00005578854 fastq.gz 59.6 MB
EGAF00005578855 fastq.gz 60.5 MB
EGAF00005578856 fastq.gz 101.9 MB
EGAF00005578857 fastq.gz 104.3 MB
EGAF00005578858 fastq.gz 255.0 MB
EGAF00005578859 fastq.gz 261.1 MB
EGAF00005578860 fastq.gz 187.8 MB
EGAF00005578861 fastq.gz 192.0 MB
EGAF00005578862 fastq.gz 54.4 MB
EGAF00005578863 fastq.gz 55.5 MB
EGAF00005578864 fastq.gz 8.1 GB
EGAF00005578865 fastq.gz 8.5 GB
EGAF00005578866 fastq.gz 80.0 MB
EGAF00005578867 fastq.gz 80.6 MB
EGAF00005578868 fastq.gz 77.9 MB
EGAF00005578869 fastq.gz 79.7 MB
EGAF00005578870 fastq.gz 4.1 GB
EGAF00005578871 fastq.gz 4.3 GB
EGAF00005578872 fastq.gz 3.6 GB
EGAF00005578873 fastq.gz 3.8 GB
EGAF00005578874 fastq.gz 130.4 MB
EGAF00005578875 fastq.gz 132.6 MB
EGAF00005578876 fastq.gz 78.8 MB
EGAF00005578877 fastq.gz 80.7 MB
EGAF00005578878 fastq.gz 55.2 MB
EGAF00005578879 fastq.gz 56.4 MB
EGAF00005578880 fastq.gz 125.0 MB
EGAF00005578881 fastq.gz 126.9 MB
EGAF00005578882 fastq.gz 142.2 MB
EGAF00005578883 fastq.gz 145.1 MB
EGAF00005578884 fastq.gz 344.4 MB
EGAF00005578885 fastq.gz 352.0 MB
EGAF00005578886 fastq.gz 5.5 GB
EGAF00005578887 fastq.gz 5.7 GB
EGAF00005578888 fastq.gz 8.1 GB
EGAF00005578889 fastq.gz 8.3 GB
EGAF00005578890 fastq.gz 5.2 GB
EGAF00005578891 fastq.gz 5.3 GB
EGAF00005578892 fastq.gz 84.4 MB
EGAF00005578893 fastq.gz 86.5 MB
132 Files (207.4 GB)