VariantMedium: Sensitive and generalizable somatic point mutation calling with 3D DenseNets trained and evaluated on experimental confirmation data

This study contains whole-exome sequencing (WES) and results of targeted deep-sequencing data of five matched tumor and normal cell lines, with two technical WES replicates each. The calls by Mutect2, Strelka2, and VariantMedium were confirmed using targeted deep sequencing on Illumina Miseq The targeted deep sequencing was performed in three runs and the results are summarized under VCF files, with labels determined for 1663 point mutations and 201 insertion-deletions.

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

3 Publications

Publications	Citations
Production of stable cytolytic T-cell clones directed against autologous human melanoma. Hérin M, Lemoine C, Weynants P, Vessière F, Van Pel A, Knuth A, Devos R, Boon T. Int J Cancer 39: 1987 390-396	162
Lysis of human pancreatic adenocarcinoma cells by autologous HLA-class I-restricted cytolytic T-lymphocyte (CTL) clones. Wölfel T, Herr W, Coulie P, Schmitt U, Meyer zum Büschenfelde KH, Knuth A. Int J Cancer 54: 1993 636-644	36
The response of autologous T cells to a human melanoma is dominated by mutated neoantigens. Lennerz V, Fatho M, Gentilini C, Frye RA, Lifke A, Ferel D, Wölfel C, Huber C, Wölfel T. Proc Natl Acad Sci U S A 102: 2005 16013-16018	340