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Additional file 1 of DNA methylation profiling identifies two distinct subgroups in breast cancers with low hormone receptor expression, mainly associated with HER2 amplification status

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posted on 2021-10-04, 03:09 authored by Philipp Jurmeister, Karsten Weber, Sonia Villegas, Thomas Karn, Michael Untch, Anne Thieme, Volkmar Müller, Eliane Taube, Peter Fasching, Wolfgang D. Schmitt, Frederik Marmé, Elmar Stickeler, Bruno V. Sinn, Paul Jank, Christian Schem, Frederick Klauschen, Marion van Mackelenbergh, Carsten Denkert, Sibylle Loibl, David Capper
Additional file 1. Fig. S1: t-distributed stochastic neighbor embedding (t-SNE) plots showing the estimated tumor purity of The Cancer Genome Atlas samples based on manual estimation using light microscopy (a), RNAseq data (ESTIMATE; b), copy number variations (ABSOLUTE; c), DNA methylation (LUMP; d) and a combined score (CPE; e).

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Deutsches Konsortien für Krebsforschung Deutsche Krebshilfe

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    Clinical Epigenetics

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    ki67 proliferation indeximportant patient subgrouphormone receptor positivehormone receptor expressiondata strongly suggestclinical outcome parametersclinical data showcancer genome atlasworse outcome comparedher2 amplification groupedclinically closely related1 – 10“ lowhr hrposincluding 13 samples“ lowhr tnbcher2 amplificationclosely relatedlowhr hrposreference sampleslike sampleslowhr tnbcunsupervised clusteringtumor cellsmainly associatedlike ”).like casesdimensionality reductionbreast cancers10 %.

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