About file location

As the EGA is co-managed by the EMBL-EBI and CRG, files could be located in the UK and/or Spain, as indicated by their respective flags.

Alternatively, files could be located in one of the international Federated EGA nodes, as indicated next to the node's flag.
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Acral Melanoma PDXs from the admixed Brazilian Population - Patient Derived Xenograft samples VCF files with somatic SNV and INDELs - Whole exome sequencing data

Raw, flagged and annotated VCF files with somatic calls made with CavEMan and Pindel for Patient Derived Xenograft samples. Variant effect prediction was run with Ensembl VEP v103. Acral melanoma (AM) is an aggressive melanoma subtype with limited therapeutic options and poor outcomes. In non-European descent and admixed populations, like in Latin America, it can account for a significant proportion of cutaneous melanoma cases. Here, we performed comprehensive genomic and functional profiling of AM from a uniquely diverse Brazilian cohort. Whole-exome and transcriptome sequencing was performed on both tumours and patient-derived xenograft (PDX) samples. The PDX were obtained from a comprehensive collection of patient-derived xenograft (AM-PDX) models that we established which faithfully retained the histopathological and genomic features of the original tumours.

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Wellcome Trust Sanger Institute Data Sharing Policy

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
EGAS00001008231 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 Quality Report
Located in
i
EGAF00008942728 vcf.gz 36.6 MB
EGAF00008942729 vcf.gz 795.5 kB
EGAF00008942734 vcf.gz 35.9 MB
EGAF00008942735 vcf.gz 900.1 kB
EGAF00008942736 vcf.gz 37.7 MB
EGAF00008942737 vcf.gz 1.1 MB
EGAF00008942742 vcf.gz 34.6 MB
EGAF00008942743 vcf.gz 1.2 MB
EGAF00008942744 vcf.gz 32.6 MB
EGAF00008942745 vcf.gz 996.8 kB
EGAF00008942746 vcf.gz 37.8 MB
EGAF00008942747 vcf.gz 1.4 MB
EGAF00008942748 vcf.gz 33.2 MB
EGAF00008942749 vcf.gz 1.1 MB
EGAF00008942754 vcf.gz 15.0 MB
EGAF00008942755 vcf.gz 82.8 MB
EGAF00008942756 vcf.gz 11.8 MB
EGAF00008942757 vcf.gz 72.3 MB
EGAF00008942758 vcf.gz 10.8 MB
EGAF00008942759 vcf.gz 70.1 MB
EGAF00008942762 vcf.gz 14.1 MB
EGAF00008942763 vcf.gz 74.0 MB
EGAF00008942764 vcf.gz 17.1 MB
EGAF00008942765 vcf.gz 81.7 MB
EGAF00008942766 vcf.gz 14.9 MB
EGAF00008942767 vcf.gz 73.9 MB
EGAF00008942768 vcf.gz 15.7 MB
EGAF00008942769 vcf.gz 79.2 MB
EGAF00008942786 vcf.gz 44.6 MB
EGAF00008942787 vcf.gz 1.0 MB
EGAF00008942788 vcf.gz 49.0 MB
EGAF00008942789 vcf.gz 1.2 MB
EGAF00008942790 vcf.gz 51.9 MB
EGAF00008942791 vcf.gz 1.5 MB
EGAF00008942792 vcf.gz 49.4 MB
EGAF00008942793 vcf.gz 1.2 MB
EGAF00008942794 vcf.gz 44.6 MB
EGAF00008942795 vcf.gz 998.6 kB
EGAF00008942796 vcf.gz 46.6 MB
EGAF00008942797 vcf.gz 991.9 kB
EGAF00008942802 vcf.gz 10.5 MB
EGAF00008942803 vcf.gz 65.3 MB
EGAF00008942804 vcf.gz 15.2 MB
EGAF00008942805 vcf.gz 81.7 MB
EGAF00008942806 vcf.gz 7.1 MB
EGAF00008942807 vcf.gz 52.6 MB
EGAF00008942808 vcf.gz 11.5 MB
EGAF00008942809 vcf.gz 70.1 MB
EGAF00008942816 vcf.gz 30.1 MB
EGAF00008942817 vcf.gz 925.9 kB
EGAF00008942822 vcf.gz 34.6 MB
EGAF00008942823 vcf.gz 1.1 MB
EGAF00008942824 vcf.gz 35.1 MB
EGAF00008942825 vcf.gz 1.6 MB
EGAF00008942830 vcf.gz 39.5 MB
EGAF00008942831 vcf.gz 1.2 MB
EGAF00008942832 vcf.gz 42.5 MB
EGAF00008942833 vcf.gz 1.5 MB
EGAF00008942840 vcf.gz 38.6 MB
EGAF00008942841 vcf.gz 843.7 kB
EGAF00008942842 vcf.gz 39.4 MB
EGAF00008942843 vcf.gz 949.6 kB
EGAF00008942852 vcf.gz 35.0 MB
EGAF00008942853 vcf.gz 924.6 kB
EGAF00008942856 vcf.gz 7.7 MB
EGAF00008942857 vcf.gz 54.4 MB
EGAF00008942860 vcf.gz 36.0 MB
EGAF00008942861 vcf.gz 1.1 MB
EGAF00008942870 vcf.gz 32.9 MB
EGAF00008942871 vcf.gz 1.3 MB
EGAF00008942882 vcf.gz 38.0 MB
EGAF00008942883 vcf.gz 907.4 kB
72 Files (2.0 GB)