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Supplementary Table S4 from Spatial Transcriptome Mapping of the Desmoplastic Growth Pattern of Colorectal Liver Metastases by In Situ Sequencing Reveals a Biologically Relevant Zonation of the Desmoplastic Rim

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posted on 2024-10-01, 07:21 authored by Axel Andersson, Maria Escriva Conde, Olga Surova, Peter Vermeulen, Carolina Wählby, Mats Nilsson, Hanna Nyström

Supplementary Table S4. P-values for different neighborhood enrichment tests performed within the rim region in the 10 desmoplastic samples.

Funding

Cancerforskningsfonden i Norrland

Knut och Alice Wallenbergs Stiftelse (Knut and Alice Wallenberg Foundation)

Cancerfonden (Swedish Cancer Society)

Västerbotten Läns Landsting (Västerbotten County Council)

Umeå Comprehensive Cancer Consortium

Uppsala Comprehensive Cancer Consortium

Vetenskapsrådet (VR)

European Research Council (ERC)

Science for Life Laboratory (SciLifeLab)

Umeå Universitet (Umeå University)

History

ARTICLE ABSTRACT

We describe the fibrotic rim formed in the desmoplastic histopathologic growth pattern (DHGP) of colorectal cancer liver metastasis (CLM) using in situ sequencing (ISS). The origin of the desmoplastic rim is still a matter of debate, and the detailed cellular organization has not yet been fully elucidated. Understanding the biology of the DHGP in CLM can lead to targeted treatment and improve survival. We used ISS, targeting 150 genes, to characterize the desmoplastic rim by unsupervised clustering of gene coexpression patterns. The cohort comprised 10 chemo-naïve liver metastasis resection samples with a DHGP. Unsupervised clustering of spatially mapped genes revealed molecular and cellular diversity within the desmoplastic rim. We confirmed the presence of the ductular reaction and cancer-associated fibroblasts. Importantly, we discovered angiogenesis and outer and inner zonation in the rim, characterized by nerve growth factor receptor and periostin expression. ISS enabled the analysis of the cellular organization of the fibrous rim surrounding CLM with a DHGP and suggests a transition from the outer part of the rim, with nonspecific liver injury response, into the inner part, with gene expression indicating collagen synthesis and extracellular matrix remodeling influenced by the interaction with cancer cells, creating a cancer cell–supportive environment. Moreover, we found angiogenic processes in the rim. Our results provide a potential explanation of the origin of the rim in DHGP and lead to exploring novel targeted treatments for patients with CLM to improve survival.

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