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Genome-wide methylation profiling and copy number analysis in atypical fibroxanthomas and pleomorphic dermal sarcomas indicate a similar molecular phenotype

Koelsche, Christian ; Stichel, Damian ; Griewank, Klaus G. ; Schrimpf, Daniel ; Reuss, David E. ; Bewerunge‑Hudler, Melanie ; Vokuhl, Christian ; Dinjens, Winand N. M. ; Petersen, Iver ; Mittelbronn, Michel ; Cuevas‑Bourdier, Adrian ; Buslei, Rolf ; Pfister, Stefan M. ; Flucke, Uta ; Mechtersheimer, Gunhild ; Mentzel, Thomas ; von Deimling, Andreas

In: Clinical Sarcoma Research, 9 (2019), Nr. 2. pp. 1-8. ISSN 2045-3329

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Download (891kB) | Lizenz: Creative Commons LizenzvertragGenome-wide methylation profiling and copy number analysis in atypical fibroxanthomas and pleomorphic dermal sarcomas indicate a similar molecular phenotype by Koelsche, Christian ; Stichel, Damian ; Griewank, Klaus G. ; Schrimpf, Daniel ; Reuss, David E. ; Bewerunge‑Hudler, Melanie ; Vokuhl, Christian ; Dinjens, Winand N. M. ; Petersen, Iver ; Mittelbronn, Michel ; Cuevas‑Bourdier, Adrian ; Buslei, Rolf ; Pfister, Stefan M. ; Flucke, Uta ; Mechtersheimer, Gunhild ; Mentzel, Thomas ; von Deimling, Andreas underlies the terms of Creative Commons Attribution 4.0

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Abstract

Background: Atypical fibroxanthomas (AFX) and pleomorphic dermal sarcomas (PDS) are lesions of the skin with overlapping histologic features and unspecific molecular traits. PDS behaves aggressive compared to AFX. Thus, a precise delineation, although challenging in some instances, is relevant.

Methods: We examined the value of DNA-methylation profiling and copy number analysis for separating these tumors. DNA-methylation data were generated from 17 AFX and 15 PDS using the Illumina EPIC array. These were compared with DNA-methylation data generated from 196 tumors encompassing potential histologic mimics like cutaneous squamous carcinomas (cSCC; n = 19), basal cell carcinomas (n = 10), melanoma metastases originating from the skin (n = 11), leiomyosarcomas (n = 11), angiosarcomas of the skin and soft tissue (n = 11), malignant peripheral nerve sheath tumors (n = 19), dermatofibrosarcomas protuberans (n = 13), extraskeletal myxoid chondrosarcomas (n = 9), myxoid liposarcomas (n = 14), schwannomas (n = 10), neurofibromas (n = 21), alveolar (n = 19) and embryonal (n = 17) rhabdomyosarcomas as well as undifferentiated pleomorphic sarcomas (n = 12).

Results: DNA-methylation profiling did not separate AFX from PDS. The DNA-methylation profiles of the other cases, however, were distinct from AFX/PDS. They reliably assigned to subtype-specific DNA-methylation clusters, although overlap occurred between some AFX/PDS and cSCC. Copy number profiling revealed alterations in a similar frequency and distribution between AFX and PDS. They involved losses of 9p (22/32) and 13q (25/32). Gains frequently involved 8q (8/32). Notably, a homozygous deletion of CDKN2A was more frequent in PDS (6/15) than in AFX (2/17), whereas amplifications were non-recurrent and overall rare (5/32).

Conclusions: Our findings support the concept that AFX and PDS belong to a common tumor spectrum. We could demonstrate the diagnostic value of DNA-methylation profiling to delineating AFX/PDS from potential mimics. However, the assessment of certain histologic features remains crucial for separating PDS from AFX.

Item Type: Article
Journal or Publication Title: Clinical Sarcoma Research
Volume: 9
Number: 2
Publisher: BioMed Central
Place of Publication: London
Date Deposited: 05 Apr 2019 12:49
Date: 2019
ISSN: 2045-3329
Page Range: pp. 1-8
Faculties / Institutes: Service facilities > German Cancer Research Center (DKFZ)
Medizinische Fakultät Heidelberg > Institut für Immunologie
Medizinische Fakultät Heidelberg > Pathologisches Institut
Uncontrolled Keywords: Pleomorphic dermal sarcoma, Atypical fibroxanthoma, Sarcomas, Melanomas, Carcinomas, Mimics, DNA methylation, Profiling
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