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.
- 28/05/2026
- 160 samples
- DAC: EGAC50000001004
- Technology: Illumina NovaSeq 6000
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
i
|
|---|---|---|---|---|
| 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) | ||||
