1. Single-cell and spatial transcriptomics identify COL6A3 as a prognostic biomarker in undifferentiated pleomorphic sarcoma.
- Author
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Klein JC, Wang L, Strand D, Lastufka C, Hosler GA, and Hon GC
- Subjects
- Humans, Prognosis, Female, Male, Gene Expression Profiling, Gene Expression Regulation, Neoplastic, Histiocytoma, Malignant Fibrous genetics, Histiocytoma, Malignant Fibrous pathology, Histiocytoma, Malignant Fibrous mortality, Histiocytoma, Malignant Fibrous diagnosis, Aged, Middle Aged, Collagen Type VI genetics, Collagen Type VI metabolism, Biomarkers, Tumor genetics, Single-Cell Analysis, Sarcoma genetics, Sarcoma pathology, Sarcoma mortality, Sarcoma diagnosis, Transcriptome
- Abstract
Undifferentiated pleomorphic sarcoma (UPS) and related tumors are the most common type of soft tissue sarcoma. However, this spectrum of tumors has different etiologies with varying rates of metastasis and survival. Two dermal-based neoplasms in this class of pleomorphic sarcomas, atypical fibroxanthoma (AFX) and pleomorphic dermal sarcoma (PDS), are challenging to differentiate at initial biopsy but vary significantly in prognosis. We performed single-cell transcriptomics on five AFX and PDS biopsy specimens as well as both single-cell and spatial transcriptomics on one PDS excision specimen to better characterize these tumors. The top differential genes between AFX and PDS were predictive of overall survival in 17 other cancers included in the Human Protein Atlas. Of these genes, COL6A3 and BGN predicted overall survival and metastasis-free survival in independent cohorts of 46 and 38 UPS tumors, respectively. COL6A3 was most predictive of overall survival in UPS patients and outperformed an established sarcoma prognostic gene panel at predicting metastasis in UPS., Competing Interests: Declarations Ethics approval and consent to participate The UT Southwestern Human Research Protection Program (HRPP) reviewed this project and determined that it does not meet the definition of human subjects’ research under 45 CFR 46.102 and therefore does not require IRB approval or oversight. Consent for publication Not applicable. Competing interests The authors declare no competing interests., (© 2024. The Author(s).)
- Published
- 2024
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