biostudies-literatureMendaza SInterregSudoe European Regional Development Fund1394https://www.ebi.ac.uk/biostudies/studies/S-EPMC8533184biostudies-literatureUnknown9(10)Triple-negative breast cancer (TNBC) is the most aggressive breast cancer (BC) subtype and lacks targeted treatment. It is diagnosed by the absence of immunohistochemical expression of several biomarkers, but this method still displays some interlaboratory variability. DNA methylome aberrations are common in BC, thereby methylation profiling could provide the identification of accurate TNBC diagnosis biomarkers. Here, we generated a signature of differentially methylated probes with class prediction ability between 5 non-neoplastic breast and 7 TNBC tissues (error rate = 0.083). The robustness of this signature was corroborated in larger cohorts of additional 58 non-neoplastic breast, 93 TNBC, and 150 BC samples from the Gene Expression Omnibus repository, where it yielded an error rate ofBiomedicinesA DNA Methylation-Based Gene Signature Can Predict Triple-Negative Breast Cancer Diagnosis.PMC85331842018PTA2015-11895-IMendaza SDe la Cruz SUlazia-Garmendia AMartin-Sanchez EGuerrero-Setas DCordoba Iturriagagoitia AMonreal-Santesteban IfalseA DNA Methylation-Based Gene Signature Can Predict Triple-Negative Breast Cancer Diagnosis.Triple-negative breast cancer (TNBC) is the most aggressive breast cancer (BC) subtype and lacks targeted treatment. It is diagnosed by the absence of immunohistochemical expression of several biomarkers, but this method still displays some interlaboratory variability. DNA methylome aberrations are common in BC, thereby methylation profiling could provide the identification of accurate TNBC diagnosis biomarkers. Here, we generated a signature of differentially methylated probes with class prediction ability between 5 non-neoplastic breast and 7 TNBC tissues (error rate = 0.083). The robustness of this signature was corroborated in larger cohorts of additional 58 non-neoplastic breast, 93 TNBC, and 150 BC samples from the Gene Expression Omnibus repository, where it yielded an error rate of2021-01-01T00:00:00Z2021 Oct2025-04-04T09:18:38.211Z2025-04-04T09:18:38.211ZS-EPMC85331843468051110.3390/biomedicines9101394