ArticleScientific reports2017
Deconvolution of DNA methylation identifies differentially methylated gene regions on 1p36 across breast cancer subtypes.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 24 citations in OpenAlex.
- Cell-Free DNA Bisulfite Sequencing Reveals Epithelial-Mesenchymal Transition Signatures for Breast Cancer.International journal of molecular sciences · 2025Article
- DNA methylation dysregulation patterns in the 1p36 region instability.Journal of applied genetics · 2025Article
- Immune infiltration-related genes regulate the progression of AML by invading the bone marrow microenvironment.Frontiers in immunology · 2024Article
- Silencing ofGland surgery · 2023Article
- Susceptibility to hypertension based onFrontiers in cardiovascular medicine · 2023Article
- Analysis of Intrinsic Breast Cancer Subtypes: The Clinical Utility of Epigenetic Biomarkers andInternational journal of molecular sciences · 2022Article
- Comprehensive Analysis of the Immunogenomics of Triple-Negative Breast Cancer Brain Metastases From LCCC1419.Frontiers in oncology · 2022Article
- Improved survival analysis by learning shared genomic information from pan-cancer data.Bioinformatics (Oxford, England) · 2020Article
- RNA-seq as a tool for evaluating human embryo competence.Genome research · 2019Article
- TOAST: improving reference-free cell composition estimation by cross-cell type differential analysis.Genome biology · 2019Article
- Article
- Epigenetic outlier profiles in depression: A genome-wide DNA methylation analysis of monozygotic twins.PloS one · 2018Article
- The dynamics of smoking-related disturbed methylation: a two time-point study of methylation change in smokers, non-smokers and former smokers.BMC genomics · 2017Article
- Cell-type deconvolution from DNA methylation: a review of recent applications.Human molecular genetics · 2017Review
- Deconvolution of DNA methylation identifies differentially methylated gene regions on 1p36 across breast cancer subtypes.Scientific reports · 2017Article
- Genome-wide association analysis reveals regulation of at-risk loci by DNA methylation in prostate cancer.Asian journal of andrologyArticle
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
Abstract
Breast cancer is a complex disease consisting of four distinct molecular subtypes. DNA methylation-based (DNAm) studies in tumors are complicated further by disease heterogeneity. In the present study, we compared DNAm in breast tumors with normal-adjacent breast samples from The Cancer Genome Atlas (TCGA). We constructed models stratified by tumor stage and PAM50 molecular subtype and performed cell-type reference-free deconvolution to control for cellular heterogeneity. We identified nineteen differentially methylated gene regions (DMGRs) in early stage tumors across eleven genes (AGRN, C1orf170, FAM41C, FLJ39609, HES4, ISG15, KLHL17, NOC2L, PLEKHN1, SAMD11, WASH5P). These regions were consistently differentially methylated in every subtype and all implicated genes are localized to the chromosomal cytoband 1p36.3. Seventeen of these DMGRs were independently validated in a similar analysis of an external data set. The identification and validation of shared DNAm alterations across tumor subtypes in early stage tumors advances our understanding of common biology underlying breast carcinogenesis and may contribute to biomarker development. We also discuss evidence of the specific importance and potential function of 1p36 in cancer.
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