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However, existing resources often lack technological diversity and comprehensive cancer coverage. Furthermore, most platforms fail to achieve deep multi-omics integration and tend to ignore cancer-type-specific methylation features, limiting their utility in precision oncology and drug discovery.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>We developed Cancer Methylation Atlas (CMAtlas), a comprehensive platform integrating 13\u00a0753 samples across 34 cancer types. By applying technology-tailored pipelines to data from various profiling technologies, we identified 830\u00a0725 tumor-specific differentially methylated elements (DMEs) and 1\u00a0480\u00a0098 differentially methylated regions (DMRs), alongside 1\u00a0154\u00a0256 cancer-type-specific DMEs and 329\u00a0154 DMRs. The platform demonstrates high cross-platform consistency and strong concordance between tumor tissues and cell lines, ensuring the robustness of our findings. All DMEs and DMRs are annotated with multi-omics data (RNA expression, somatic mutations, and chromatin accessibility) and clinical relevance (survival associations and cell-free DNA profiling). We further demonstrate the utility of CMAtlas by identifying prognostic aberrant methylation in colorectal cancer driver genes.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>CMAtlas is freely accessible at {{https:\/\/cmatlas.renlab.cn\/}}. The platform offers an intuitive web interface supporting gene-centric and cancer-centric queries, alongside customizable analysis modules designed to facilitate user-specific research needs.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btag022","type":"journal-article","created":{"date-parts":[[2026,1,13]],"date-time":"2026-01-13T12:32:08Z","timestamp":1768307528000},"source":"Crossref","is-referenced-by-count":0,"title":["CMAtlas: a comprehensive DNA methylation atlas for exploring epigenetic alterations in 34 human cancer types"],"prefix":"10.1093","volume":"42","author":[{"given":"Mengni","family":"Liu","sequence":"first","affiliation":[{"name":"Clinical Big Data Research Center, Scientific Research Center, Shenzhen Key Laboratory of Bone Tissue Repair and Translational Research, Department of Orthopaedic Surgery, The Seventh Affiliated Hospital of Sun Yat-sen University , Shenzhen 518107,","place":["China"]},{"name":"State Key Laboratory of Oncology 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510182,","place":["China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Luowanyue","family":"Zhang","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Cancer Center, Collaborative Innovation Center for Cancer Medicine, School of Life Sciences, Sun Yat-sen University , Guangzhou 510060,","place":["China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tianjian","family":"Chen","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Oncology in South China, Cancer Center, Collaborative Innovation Center for Cancer Medicine, School of Life Sciences, Sun Yat-sen University , Guangzhou 510060,","place":["China"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xingzhe","family":"Wang","sequence":"additional","affiliation":[{"name":"Clinical Big Data Research Center, Scientific Research Center, Shenzhen Key Laboratory of Bone Tissue Repair and Translational Research, Department of 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