Abstract INTRODUCTION: High-grade, locally advanced primary prostate cancer (PC) carries an increased risk of metastatic progression. The Androgen Receptor indifferent (ARi) phenotype is characterized by low PSA expression despite high expression of AR and has been noted in CRPC where it is considered to be induced by treatment. We sought to examine primary, treatment-naïve PC cases for evidence of ARi. METHODS: We applied digital pathology and multiplexed, single-cell resolution tissue staining techniques to a locally advanced PC patient cohort with 27 patients, and computational RNA expression analysis to the TCGA prostate cancer dataset (TCGA-PRAD). Thus, we first quantify AR and PSA protein expression levels in cells and then identify tissue regions with 30% AR+ cells and 30% PSA+ cells as ARi cases. The PC regions we analyzed include seminal vesicle invasion (SV), lymph node metastasis (LN), extracapsular extension (ECE), perineural invasion (PNI), cribriform (CRIB), and non-cribriform (HGNC). For computational analysis of the TCGA bulk RNA sequencing data, we stratify patients according to high AR / low PSA (ARi-cohort) and high AR / high PSA (AR responsive, or ARr-cohort) and perform differential expression and gene set enrichment analysis accordingly. RESULTS: Pathologically, we identified ARi phenotype in one or more tissue samples from 5 out of 27 patients. ARi is more frequent in LN compared to SV; and within the prostate, HGNC exhibited more ARi than CRIB. Computational analysis of the TCGA-PRAD cohort (n=500) revealed that ARi patients, compared to AR-responsive patients, are enriched in epithelial-mesenchymal transition (EMT), stem-like, and ONECUT2-induced gene signatures. Moreover, we demonstrate that ARi phenotype is strongly associated with the Prostate Cancer Subtype 1 (PCS1) and PAM50 Basal subtype, consistent with the aggressiveness of the disease. CONCLUSION: We identified the ARi phenotype in two cohorts of primary PC patients using both tissue staining with single cell resolution and computational analysis of bulk RNA expression. We further characterized this phenotype using published gene signatures and determined its relationship to PC cancer subtypes. Furthermore, we propose that the presence of the ARi phenotype can be assessed quickly by clinical immunohistochemistry with AR and PSA antibodies followed by quantification of positive ARi cells (as defined by a high AR: PSA ratio). Moving forward, we will perform single cell RNA expression analysis on the cohort we performed tissue staining to further validate the presence and behavior of ARi phenotype in primary PC, expand into other cohorts, as well as evaluate treatment strategies likely to elicit a response in these cells according to their transcriptomic phenotypes. Citation Format: Tessa B. Tolson, Beatrice Knudsen, Yi Qiao, Wei Zhang, Mason Hovinga, Chance Walker, Erika Egal, Michael Freeman, Yosep Chong, Qian Yang. Identification and phenotypical evaluation of androgen receptor indifferent phenotype in treatment-naïve primary prostate cancer cases abstract. In: Proceedings of the AACR Special Conference in Cancer Research: Innovations in Prostate Cancer Research and Treatment; 2026 Jan 20-22; Philadelphia PA. Philadelphia (PA): AACR; Cancer Res 2026;86 (2Suppl): Abstract nr A064.
Tolson et al. (Tue,) studied this question.