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WGS - germline - oral squamous cell carcinoma

We conducted a retrospective, single-center Canadian cohort study of patients who underwent primary surgery for OSCC between 2010 and 2024. Nucleic acid quality was assessed using the 4150 TapeStation System (Agilent) prior to library preparation. WGS was performed on germline DNA, following Genome Analysis Toolkit’s (GATK) Best Practices and procedures, with a target of 30X deduplicated coverage per sample, using an Illumina NovaSeq 6000 instrument.

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CHUM HNSCC biobank

The process for granting access to data is initiated by submitting a request to the biobank’s scientific committee, which will assess the relevance of the request. This committee is responsible for granting permissions that provide access to samples for external researchers and organizations. All projects must have received ethical approval from their institution. A data transfer agreement must be signed by the biobank manager and the researcher using the data before access. This agreement stipulates that the researcher and their team will maintain the confidentiality of the information provided, use the data solely for the purposes of the specified project, will not share the data with individuals not involved in the project, and will comply with the biobank’s governance framework. The researcher using the data must indicate in their scientific communications (written and oral) that the material was obtained from the biobank. They must also provide the biobank manager with a copy of any publications and documents in which this is acknowledged.

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
EGAS50000001809 Whole Genome 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 Quality Report
Located in
EGAF50000810644 bam 107.0 GB
EGAF50000810645 bam 133.9 GB
EGAF50000810646 bam 195.8 GB
EGAF50000810647 bam 145.4 GB
EGAF50000810648 bam 127.1 GB
EGAF50000810649 bam 125.8 GB
EGAF50000810650 bam 140.0 GB
EGAF50000810651 bam 129.0 GB
EGAF50000810652 bam 113.1 GB
EGAF50000810653 bam 174.8 GB
EGAF50000810654 bam 138.3 GB
EGAF50000810655 bam 115.5 GB
EGAF50000810656 bam 107.2 GB
EGAF50000810657 bam 138.7 GB
EGAF50000810658 bam 231.2 GB
EGAF50000810659 bam 152.6 GB
EGAF50000810660 bam 153.6 GB
EGAF50000810661 bam 180.9 GB
EGAF50000810662 bam 159.4 GB
EGAF50000810663 bam 143.4 GB
EGAF50000810664 bam 118.6 GB
EGAF50000810665 bam 156.8 GB
EGAF50000810666 bam 121.4 GB
EGAF50000810667 bam 157.2 GB
EGAF50000810668 bam 159.7 GB
EGAF50000810669 bam 149.0 GB
EGAF50000810670 bam 165.6 GB
EGAF50000810671 bam 169.1 GB
EGAF50000810672 bam 133.2 GB
EGAF50000810673 bam 112.7 GB
EGAF50000810674 bam 109.5 GB
EGAF50000810675 bam 148.6 GB
EGAF50000810676 bam 140.0 GB
EGAF50000810677 bam 174.8 GB
EGAF50000810678 bam 183.4 GB
EGAF50000810679 bam 158.7 GB
EGAF50000810680 bam 141.7 GB
EGAF50000810681 bam 173.8 GB
EGAF50000810682 bam 149.1 GB
EGAF50000810683 bam 158.8 GB
EGAF50000810684 bam 153.3 GB
EGAF50000810685 bam 146.6 GB
EGAF50000810686 bam 108.9 GB
EGAF50000810687 bam 143.3 GB
EGAF50000810688 bam 208.3 GB
EGAF50000810689 bam 104.6 GB
EGAF50000810690 bam 123.3 GB
EGAF50000810691 bam 230.4 GB
EGAF50000810692 bam 260.9 GB
EGAF50000810693 bam 150.5 GB
EGAF50000810694 bam 146.2 GB
EGAF50000810695 bam 175.0 GB
EGAF50000810696 bam 104.1 GB
EGAF50000810697 bam 124.1 GB
EGAF50000810698 bam 127.2 GB
EGAF50000810699 bam 98.0 GB
EGAF50000810700 bam 92.9 GB
EGAF50000810701 bam 107.7 GB
EGAF50000810702 bam 108.4 GB
EGAF50000810703 bam 127.4 GB
EGAF50000810704 bam 100.8 GB
EGAF50000810705 bam 123.4 GB
EGAF50000810706 bam 118.9 GB
EGAF50000810707 bam 176.4 GB
EGAF50000810708 bam 126.1 GB
EGAF50000810709 bam 140.0 GB
EGAF50000810710 bam 130.1 GB
EGAF50000810711 bam 86.1 GB
EGAF50000810712 bam 132.6 GB
EGAF50000810713 bam 121.9 GB
EGAF50000810714 bam 101.5 GB
EGAF50000810715 bam 106.2 GB
EGAF50000810716 bam 135.5 GB
EGAF50000810717 bam 148.5 GB
EGAF50000810718 bam 117.0 GB
EGAF50000810719 bam 196.4 GB
EGAF50000810720 bam 132.6 GB
EGAF50000810721 bam 100.0 GB
EGAF50000810722 bam 127.2 GB
EGAF50000810723 bam 122.7 GB
EGAF50000810724 bam 112.1 GB
EGAF50000810725 bam 104.8 GB
EGAF50000810726 bam 135.6 GB
EGAF50000810727 bam 192.6 GB
EGAF50000810728 bam 103.2 GB
EGAF50000810729 bam 110.6 GB
EGAF50000810730 bam 101.5 GB
EGAF50000810731 bam 120.8 GB
EGAF50000810732 bam 138.8 GB
EGAF50000810733 bam 104.0 GB
EGAF50000810734 bam 108.7 GB
EGAF50000810735 bam 126.1 GB
EGAF50000810736 bam 157.8 GB
EGAF50000810737 bam 102.4 GB
EGAF50000810738 bam 173.6 GB
EGAF50000810739 bam 136.6 GB
EGAF50000810740 bam 107.7 GB
EGAF50000810741 bam 156.9 GB
EGAF50000810742 bam 117.6 GB
EGAF50000810743 bam 121.4 GB
EGAF50000810744 bam 119.0 GB
EGAF50000810745 bam 109.9 GB
EGAF50000810746 bam 134.6 GB
EGAF50000810747 bam 154.1 GB
EGAF50000810748 bam 186.2 GB
EGAF50000810749 bam 149.6 GB
EGAF50000810750 bam 142.7 GB
EGAF50000810751 bam 130.7 GB
EGAF50000810752 bam 115.4 GB
EGAF50000810753 bam 109.1 GB
EGAF50000810754 bam 154.3 GB
EGAF50000810755 bam 155.7 GB
EGAF50000810756 bam 169.1 GB
EGAF50000810757 bam 154.6 GB
EGAF50000810758 bam 130.9 GB
EGAF50000810759 bam 122.6 GB
EGAF50000810760 bam 133.4 GB
EGAF50000810761 bam 183.8 GB
EGAF50000810762 bam 125.1 GB
EGAF50000810763 bam 163.9 GB
EGAF50000810764 bam 143.7 GB
EGAF50000810765 bam 211.1 GB
EGAF50000810766 bam 362.0 GB
EGAF50000810767 bam 171.1 GB
EGAF50000810768 bam 172.7 GB
EGAF50000810769 bam 144.2 GB
EGAF50000810770 bam 133.4 GB
EGAF50000810771 bam 112.5 GB
EGAF50000810772 bam 125.3 GB
EGAF50000810773 bam 186.5 GB
EGAF50000810774 bam 170.5 GB
EGAF50000810775 bam 101.7 GB
EGAF50000810776 bam 155.7 GB
EGAF50000810777 bam 112.1 GB
EGAF50000810778 bam 152.4 GB
EGAF50000810779 bam 116.2 GB
EGAF50000810780 bam 130.8 GB
EGAF50000810781 bam 107.0 GB
EGAF50000810782 bam 150.1 GB
EGAF50000810783 bam 122.2 GB
EGAF50000810784 bam 148.6 GB
EGAF50000810785 bam 263.6 GB
EGAF50000810786 bam 111.2 GB
EGAF50000810787 bam 133.7 GB
EGAF50000810788 bam 126.7 GB
EGAF50000810789 bam 190.2 GB
EGAF50000810790 bam 157.7 GB
EGAF50000810791 bam 114.0 GB
EGAF50000810792 bam 151.8 GB
EGAF50000810793 bam 143.0 GB
EGAF50000810794 bam 159.5 GB
EGAF50000810795 bam 169.1 GB
EGAF50000810796 bam 119.1 GB
EGAF50000810797 bam 105.3 GB
EGAF50000810798 bam 139.2 GB
EGAF50000810799 bam 145.2 GB
EGAF50000810800 bam 201.9 GB
EGAF50000810801 bam 93.7 GB
EGAF50000810802 bam 114.5 GB
EGAF50000810803 bam 164.7 GB
160 Files (22.7 TB)