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CAF-associated genes putatively representing distinct prognosis by in silico landscape of stromal components of colon cancer
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CAF-associated genes putatively representing distinct prognosis by in silico landscape of stromal components of colon cancer
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Journal Article
CAF-associated genes putatively representing distinct prognosis by in silico landscape of stromal components of colon cancer
2024
Overview
Comprehensive understanding prognostic relevance of distinct tumor microenvironment (TME) remained elusive in colon cancer. In this study, we performed in silico analysis of the stromal components of primary colon cancer, with a focus on the markers of cancer-associated fibroblasts (CAF) and tumor-associated endothelia (TAE), as well as immunological infiltrates like tumor-associated myeloid cells (TAMC) and cytotoxic T lymphocytes (CTL). The relevant CAF-associated genes (CAFG)(representing R index = 0.9 or beyond with SPARC ) were selected based on stroma specificity (cancer stroma/epithelia, cS/E = 10 or beyond) and expression amounts, which were largely exhibited negative prognostic impacts. CAFG were partially shared with TAE-associated genes (TAEG)( PLAT , ANXA1 , and PTRF ) and TAMC-associated genes (TAMCG)( NNMT ), but not with CTL-associated genes (CTLG). Intriguingly, CAFG were prognostically subclassified in order of fibrosis (representing COL5A2 , COL5A1 , and COL12A1 ) followed by exclusive TAEG and TAMCG. Prognosis was independently stratified by CD8A , a CTL marker, in the context of low expression of the strongest negative prognostic CAFG, COL8A1 . CTLG were comprehensively identified as IFNG , B2M , and TLR4 , in the group of low S/E, representing good prognosis. Our current in silico analysis of the micro-dissected stromal gene signatures with prognostic relevance clarified comprehensive understanding of clinical features of the TME and provides deep insights of the landscape.
Publisher
Public Library of Science,Public Library of Science (PLoS)
