{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,21]],"date-time":"2026-08-21T10:25:30Z","timestamp":1787307930944,"version":"build-2736575974"},"reference-count":51,"publisher":"MDPI AG","issue":"16","license":[{"start":{"date-parts":[[2026,8,21]],"date-time":"2026-08-21T00:00:00Z","timestamp":1787270400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100002794","name":"Swedish Cancer Society","doi-asserted-by":"publisher","award":["21 1767 Pj 01 H"],"award-info":[{"award-number":["21 1767 Pj 01 H"]}],"id":[{"id":"10.13039\/501100002794","id-type":"DOI","asserted-by":"publisher"}]},{"award":["21 1767 Pj 01 H"],"award-info":[{"award-number":["21 1767 Pj 01 H"]}],"id":[{"id":"https:\/\/ror.org\/0527jb766","id-type":"ROR","asserted-by":"publisher"}]},{"name":"Swedish state, under the agreement between the Swedish government and the county councils"},{"name":"Assar Gabrielsson Foundation","award":["FB23-110"],"award-info":[{"award-number":["FB23-110"]}]},{"award":["FB23-110"],"award-info":[{"award-number":["FB23-110"]}],"id":[{"id":"https:\/\/ror.org\/019xtsv53","id-type":"ROR","asserted-by":"publisher"}]},{"name":"Research Fund (R&D) at Skaraborg Hospital"},{"id":[{"id":"https:\/\/ror.org\/040m2wv49","id-type":"ROR","asserted-by":"publisher"}]},{"name":"Healthcare Committee, Region V\u00e4stra G\u00f6taland"},{"id":[{"id":"https:\/\/ror.org\/00a4x6777","id-type":"ROR","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Cancers"],"abstract":"<jats:p>Background: Renal cell carcinomas (RCCs) represent neoplasms with variable biological behaviour, some of which remain difficult to classify within the current diagnostic framework. Clear cell papillary renal cell tumor (CCPRCT) is now recognised as an indolent entity, whereas RCC with fibromyomatous stroma (RCCFMS) remains a provisional subtype with partially overlapping morphological features. Methods: We analysed a multifocal RCC with clear cell morphology and prominent fibromyomatous stroma via whole-genome and RNA sequencing. The obtained molecular profile was compared with The Cancer Genome Atlas (TCGA) pan-cancer dataset, which includes 885 RCC cases, and histological re-evaluation of 10 identified similar cases was performed. Transcriptional data were mined for potential markers, which were validated in an independent cohort. Results: The 10 TCGA cases with similar transcriptomic features were characterised by diploid genomes, absence of recurrent chromosomal alterations, and lack of VHL mutations. Reduced VHL mRNA expression was observed, with increased methylation at selected CpG sites consistent with possible epigenetic down-regulation. Diagnostic variability was identified during histological re-evaluation of the 10 similar cases by three urological pathologists. Differential expression analysis highlighted cytokeratin 17 (CK17) and collagen 17A1 (COL17A1) as candidate markers. Immunohistochemical evaluation in a small (n = 6) independent CCPRCT cohort demonstrated expression of both markers, whereas tissue microarrays from 257 clear cell and 68 papillary RCC cases were found to be negative. Conclusions: These findings suggest that a subset of renal tumors with overlapping morphological features of CCPRCT and RCCFMS may share common molecular characteristics. CK17 and COL17A1 emerged as candidate markers for recognising these tumors, although their diagnostic sensitivity and specificity require validation across a broader spectrum of renal neoplasms. These observations are exploratory and hypothesis-generating, and further studies in large, well-characterised cohorts are required to clarify the biological and diagnostic significance of this subgroup.<\/jats:p>","DOI":"10.3390\/cancers18162713","type":"journal-article","created":{"date-parts":[[2026,8,21]],"date-time":"2026-08-21T09:31:59Z","timestamp":1787304719000},"page":"2713","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Transcriptomic Profiling Identifies a Subset of Renal Tumors with Overlapping Features of Clear Cell Papillary Renal Cell Tumor and Renal Cell Carcinoma with Fibromyomatous Stroma"],"prefix":"10.3390","volume":"18","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2469-3564","authenticated-orcid":false,"given":"Rasmus","family":"Jakobsson","sequence":"first","affiliation":[{"name":"Department of Laboratory Medicine, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"},{"name":"Department of Surgery and Urology, Skaraborg Hospital, 549 49 Sk\u00f6vde, Sweden"},{"name":"Sahlgrenska Center for Cancer Research, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Martin","family":"Lindstr\u00f6m","sequence":"additional","affiliation":[{"name":"Department of Translational Medicine, Lund University, 202 13 Malm\u00f6, Sweden"},{"name":"Department of Clinical Pathology, Laboratory Medicine Sk\u00e5ne, 205 02 Malm\u00f6, Sweden"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yvonne","family":"Arvidsson","sequence":"additional","affiliation":[{"name":"Sahlgrenska Center for Cancer Research, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"},{"name":"Department of Clinical Pathology, Sahlgrenska University Hospital, 413 45 Gothenburg, Sweden"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9683-4637","authenticated-orcid":false,"given":"Iva","family":"Johansson","sequence":"additional","affiliation":[{"name":"Department of Clinical Pathology, Sahlgrenska University Hospital, 413 45 Gothenburg, Sweden"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0346-6837","authenticated-orcid":false,"given":"Jonas A.","family":"Nilsson","sequence":"additional","affiliation":[{"name":"Sahlgrenska Center for Cancer Research, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"},{"name":"Department of Surgery, Institute of Clinical Sciences, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0516-9361","authenticated-orcid":false,"given":"Niels","family":"Marcussen","sequence":"additional","affiliation":[{"name":"Department of Pathology, University Hospital of Southern Denmark, 6200 Aabenraa, Denmark"},{"name":"Institute of Regional Health Research, University of Southern Denmark, 5230 Odense, Denmark"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6332-4043","authenticated-orcid":false,"given":"Joakim","family":"Karlsson","sequence":"additional","affiliation":[{"name":"Sahlgrenska Center for Cancer Research, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"},{"name":"Department of Surgery, Institute of Clinical Sciences, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8510-3102","authenticated-orcid":false,"given":"Martin E.","family":"Johansson","sequence":"additional","affiliation":[{"name":"Department of Laboratory Medicine, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"},{"name":"Sahlgrenska Center for Cancer Research, Sahlgrenska Academy, University of Gothenburg, 405 30 Gothenburg, Sweden"},{"name":"Department of Clinical Pathology, Sahlgrenska University Hospital, 413 45 Gothenburg, Sweden"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,8,21]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1002\/(SICI)1096-9896(199710)183:2<131::AID-PATH931>3.0.CO;2-G","article-title":"The Heidelberg classification of renal cell tumors","volume":"183","author":"Kovacs","year":"1997","journal-title":"J. Pathol."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"458","DOI":"10.1016\/j.eururo.2022.06.016","article-title":"The 2022 World Health Organization Classification of Tumors of the Urinary System and Male Genital Organs-Part A: Renal, Penile, and Testicular Tumors","volume":"82","author":"Moch","year":"2022","journal-title":"Eur. Urol."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"1392","DOI":"10.1038\/s41379-021-00779-w","article-title":"New developments in existing WHO entities and evolving molecular concepts: The Genitourinary Pathology Society (GUPS) update on renal neoplasia","volume":"34","author":"Trpkov","year":"2021","journal-title":"Mod. Pathol."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"96","DOI":"10.1016\/j.pathol.2020.10.004","article-title":"Contributions of genetics to the evolution of the diagnostic classification of renal cell neoplasia: A personal perspective","volume":"53","author":"Eble","year":"2021","journal-title":"Pathology"},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"93","DOI":"10.1016\/j.eururo.2016.02.029","article-title":"The 2016 WHO Classification of Tumors of the Urinary System and Male Genital Organs-Part A: Renal, Penile, and Testicular Tumors","volume":"70","author":"Moch","year":"2016","journal-title":"Eur. Urol."},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"311","DOI":"10.1053\/adpa.2000.17890","article-title":"Benign renal angiomyoadenomatous tumor: A previously unreported renal tumor","volume":"4","author":"Michal","year":"2000","journal-title":"Ann. Diagn. Pathol."},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"1064","DOI":"10.1111\/j.1365-2559.2011.03857.x","article-title":"Clear-cell papillary renal cell carcinoma: 24 cases of a distinct low-grade renal tumor and a comparative genomic hybridization array study of seven cases","volume":"58","author":"Adam","year":"2011","journal-title":"Histopathology"},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"19","DOI":"10.1177\/1066896911414273","article-title":"Renal-cell carcinomas in end-stage kidneys: A clinicopathological study with emphasis on clear-cell papillary renal-cell carcinoma and acquired cystic kidney disease-associated carcinoma","volume":"20","author":"Bhatnagar","year":"2012","journal-title":"Int. J. Surg. Pathol."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"168","DOI":"10.1097\/PAP.0000000000000337","article-title":"Renal Cell Carcinoma with Fibromyomatous Stroma-The Whole Story","volume":"29","author":"Shah","year":"2022","journal-title":"Adv. Anat. Pathol."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"571","DOI":"10.1097\/PAS.0000000000001422","article-title":"\u201cRenal Cell Carcinoma with Leiomyomatous Stroma\u201d Harbor Somatic Mutations of TSC1, TSC2, MTOR, and\/or ELOC (TCEB1): Clinicopathologic and Molecular Characterization of 18 Sporadic Tumors Supports a Distinct Entity","volume":"44","author":"Shah","year":"2020","journal-title":"Am. J. Surg. Pathol."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"105680","DOI":"10.1016\/j.humpath.2024.105680","article-title":"Metastatic renal cell carcinoma with fibromyomatous stroma associated with tuberous sclerosis or MTOR, TSC1\/TSC2-Mutations: A Series of 4 cases and a review of the literature","volume":"153","author":"Gupta","year":"2024","journal-title":"Hum. Pathol."},{"key":"ref_12","doi-asserted-by":"crossref","unstructured":"Zhu, Y., Fang, M., and Wang, S. (2025). ELOC(TCEB1)-mutated renal cell carcinoma: A case report and clinicopathological analysis. Front. Oncol., 15.","DOI":"10.3389\/fonc.2025.1703364"},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"1502","DOI":"10.1097\/PAS.0000000000000514","article-title":"Clear Cell Renal Cell Carcinoma with Borderline Features of Clear Cell Papillary Renal Cell Carcinoma: Combined Morphologic, Immunohistochemical, and Cytogenetic Analysis","volume":"39","author":"Williamson","year":"2015","journal-title":"Am. J. Surg. Pathol."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"1167","DOI":"10.1038\/s41379-021-00737-6","article-title":"Novel, emerging and provisional renal entities: The Genitourinary Pathology Society (GUPS) update on renal neoplasia","volume":"34","author":"Trpkov","year":"2021","journal-title":"Mod. Pathol."},{"key":"ref_15","doi-asserted-by":"crossref","unstructured":"The Cancer Genome Atlas Research Network (2013). Comprehensive molecular characterization of clear cell renal cell carcinoma. Nature, 499, 43\u201349.","DOI":"10.1038\/nature12222"},{"key":"ref_16","doi-asserted-by":"crossref","unstructured":"(2016). The Cancer Genome Atlas Research Network. Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma. N. Engl. J. Med., 374, 135\u2013145.","DOI":"10.1056\/NEJMoa1505917"},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"319","DOI":"10.1016\/j.ccr.2014.07.014","article-title":"The somatic genomic landscape of chromophobe renal cell carcinoma","volume":"26","author":"Davis","year":"2014","journal-title":"Cancer Cell"},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"2476","DOI":"10.1016\/j.celrep.2016.02.024","article-title":"Multilevel Genomics-Based Taxonomy of Renal Cell Carcinoma","volume":"14","author":"Chen","year":"2016","journal-title":"Cell Rep."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.3317","article-title":"HISAT: A fast spliced aligner with low memory requirements","volume":"12","author":"Kim","year":"2015","journal-title":"Nat. Methods"},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"166","DOI":"10.1093\/bioinformatics\/btu638","article-title":"HTSeq\u2014A Python framework to work with high-throughput sequencing data","volume":"31","author":"Anders","year":"2015","journal-title":"Bioinformatics"},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1200\/PO.18.00002","article-title":"Mutational Signature and Transcriptomic Classification Analyses as the Decisive Diagnostic Tools for a Cancer of Unknown Primary","volume":"2","author":"Bagge","year":"2018","journal-title":"JCO Precis. Oncol."},{"key":"ref_22","first-page":"2579","article-title":"Visualizing data using t-SNE","volume":"9","author":"Hinton","year":"2008","journal-title":"J. Mach. Learn. Res."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"417","DOI":"10.1016\/j.cels.2015.12.004","article-title":"The Molecular Signatures Database (MSigDB) hallmark gene set collection","volume":"1","author":"Liberzon","year":"2015","journal-title":"Cell Syst."},{"key":"ref_24","unstructured":"Korotkevich, G., Sukhov, V., Budin, N., Shpak, B., Artyomov, M.N., and Sergushichev, A. (2021). Fast gene set enrichment analysis. bioRxiv, 060012."},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"1754","DOI":"10.1093\/bioinformatics\/btp324","article-title":"Fast and accurate short read alignment with Burrows-Wheeler transform","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"1297","DOI":"10.1101\/gr.107524.110","article-title":"The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data","volume":"20","author":"McKenna","year":"2010","journal-title":"Genome Res."},{"key":"ref_27","doi-asserted-by":"crossref","unstructured":"Benjamin, D., Sato, T., Cibulskis, K., Getz, G., Stewart, C., and Lichtenstein, L. (2019). Calling Somatic SNVs and Indels with Mutect2. bioRxiv, 861054.","DOI":"10.1101\/861054"},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"434","DOI":"10.1038\/s41586-020-2308-7","article-title":"The mutational constraint spectrum quantified from variation in 141,456 humans","volume":"581","author":"Karczewski","year":"2020","journal-title":"Nature"},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"248","DOI":"10.1038\/nmeth0410-248","article-title":"A method and server for predicting damaging missense mutations","volume":"7","author":"Adzhubei","year":"2010","journal-title":"Nat. Methods"},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"W452","DOI":"10.1093\/nar\/gks539","article-title":"SIFT web server: Predicting effects of amino acid substitutions on proteins","volume":"40","author":"Sim","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"ref_31","doi-asserted-by":"crossref","first-page":"313","DOI":"10.1016\/j.celrep.2018.03.075","article-title":"The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma","volume":"23","author":"Ricketts","year":"2018","journal-title":"Cell Rep."},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"e75","DOI":"10.1158\/0008-5472.CAN-17-0629","article-title":"The Digital Slide Archive: A Software Platform for Management, Integration, and Analysis of Histology for Cancer Research","volume":"77","author":"Gutman","year":"2017","journal-title":"Cancer Res."},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"89","DOI":"10.1007\/s00428-008-0697-3","article-title":"Renal angiomyoadenomatous tumor: Morphologic, immunohistochemical, and molecular genetic study of a distinct entity","volume":"454","author":"Michal","year":"2009","journal-title":"Virchows Arch."},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"89","DOI":"10.1007\/s00428-014-1591-9","article-title":"The leiomyomatous stroma in renal cell carcinomas is polyclonal and not part of the neoplastic process","volume":"465","author":"Petersson","year":"2014","journal-title":"Virchows Arch."},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1016\/j.anndiagpath.2015.11.003","article-title":"Clear cell papillary renal cell carcinoma, renal angiomyoadenomatous tumor, and renal cell carcinoma with leiomyomatous stroma relationship of 3 types of renal tumors: A review","volume":"21","author":"Hes","year":"2016","journal-title":"Ann. Diagn. Pathol."},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"1267","DOI":"10.1097\/PAS.0000000000002117","article-title":"Positive GPNMB Immunostaining Differentiates Renal Cell Carcinoma With Fibromyomatous Stroma Associated with TSC1\/2\/MTOR Alterations from Others","volume":"47","author":"Li","year":"2023","journal-title":"Am. J. Surg. Pathol."},{"key":"ref_37","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1111\/his.13727","article-title":"New and emerging renal entities: A perspective post-WHO 2016 classification","volume":"74","author":"Trpkov","year":"2019","journal-title":"Histopathology"},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"905","DOI":"10.1111\/his.15123","article-title":"Metastatic clear cell papillary renal cell \u2018tumor\u2019","volume":"84","author":"Gupta","year":"2024","journal-title":"Histopathology"},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"Jco2018792549","DOI":"10.1200\/JCO.2018.79.2549","article-title":"Chromosome 3p Loss-Orchestrated VHL, HIF, and Epigenetic Deregulation in Clear Cell Renal Cell Carcinoma","volume":"36","author":"Hsieh","year":"2018","journal-title":"J. Clin. Oncol."},{"key":"ref_40","doi-asserted-by":"crossref","first-page":"515","DOI":"10.1016\/j.celrep.2018.06.025","article-title":"A Pan-Cancer Compendium of Genes Deregulated by Somatic Genomic Rearrangement across More Than 1,400 Cases","volume":"24","author":"Zhang","year":"2018","journal-title":"Cell Rep."},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"468","DOI":"10.1016\/j.eururo.2020.09.027","article-title":"The Clinicopathologic and Molecular Landscape of Clear Cell Papillary Renal Cell Carcinoma: Implications in Diagnosis and Management","volume":"79","author":"Weng","year":"2021","journal-title":"Eur. Urol."},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"234","DOI":"10.1016\/j.prp.2013.12.009","article-title":"Clear cell papillary renal cell carcinoma: Incidence, morphological features, immunohistochemical profile, and biologic behavior: A single institution study","volume":"210","author":"Alexiev","year":"2014","journal-title":"Pathol. Res. Pract."},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"873","DOI":"10.1097\/PAS.0000000000000446","article-title":"Clear cell-papillary renal cell carcinoma of the kidney not associated with end-stage renal disease: Clinicopathologic correlation with expanded immunophenotypic and molecular characterization of a large cohort with emphasis on relationship with renal angiomyoadenomatous tumor","volume":"39","author":"Aron","year":"2015","journal-title":"Am. J. Surg. Pathol."},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"e38986","DOI":"10.7554\/eLife.38986","article-title":"Abnormal oxidative metabolism in a quiet genomic background underlies clear cell papillary renal cell carcinoma","volume":"8","author":"Xu","year":"2019","journal-title":"eLife"},{"key":"ref_45","doi-asserted-by":"crossref","first-page":"71","DOI":"10.1097\/JU.0000000000003765","article-title":"Family History and Risk of Renal Cell Carcinoma: A National Multiregister Case-Control Study","volume":"211","author":"Jakobsson","year":"2024","journal-title":"J. Urol."},{"key":"ref_46","doi-asserted-by":"crossref","first-page":"399","DOI":"10.1016\/j.eururo.2022.03.006","article-title":"European Association of Urology Guidelines on Renal Cell Carcinoma: The 2022 Update","volume":"82","author":"Ljungberg","year":"2022","journal-title":"Eur. Urol."},{"key":"ref_47","doi-asserted-by":"crossref","first-page":"109","DOI":"10.1016\/j.pathol.2020.10.002","article-title":"Clear cell papillary renal cell carcinoma: An update after 15 years","volume":"53","author":"Williamson","year":"2021","journal-title":"Pathology"},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"136","DOI":"10.1016\/j.urology.2016.12.002","article-title":"Clear Cell Papillary Renal Cell Carcinoma: New Clinical and Imaging Characteristics","volume":"103","author":"Wang","year":"2017","journal-title":"Urology"},{"key":"ref_49","doi-asserted-by":"crossref","first-page":"120","DOI":"10.1186\/s13148-016-0290-6","article-title":"In epithelial cancers, aberrant COL17A1 promoter methylation predicts its misexpression and increased invasion","volume":"8","author":"Thangavelu","year":"2016","journal-title":"Clin. Epigenet."},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1038\/nrg3642","article-title":"Sequencing depth and coverage: Key considerations in genomic analyses","volume":"15","author":"Sims","year":"2014","journal-title":"Nat. Rev. Genet."},{"key":"ref_51","doi-asserted-by":"crossref","first-page":"5040","DOI":"10.1038\/s41467-020-18688-y","article-title":"Framework for quality assessment of whole genome cancer sequences","volume":"11","author":"Whalley","year":"2020","journal-title":"Nat. Commun."}],"container-title":["Cancers"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2072-6694\/18\/16\/2713\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,8,21]],"date-time":"2026-08-21T09:42:27Z","timestamp":1787305347000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2072-6694\/18\/16\/2713"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,8,21]]},"references-count":51,"journal-issue":{"issue":"16","published-online":{"date-parts":[[2026,8]]}},"alternative-id":["cancers18162713"],"URL":"https:\/\/doi.org\/10.3390\/cancers18162713","relation":{},"ISSN":["2072-6694"],"issn-type":[{"value":"2072-6694","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,8,21]]}}}