Single-cell and whole-transcriptome sequencing of lymph node metastasis-related gene signature: A large-scale pan-cancer cohort, machine learning and experimental study: [RETRACTED]

作者：Jianguo Lai, Yan He, Xiaoqing Cai, Yuchen Cao, You Long, Zepeng Luo, Kaige Deng, Yiran Lin, R. Teng, Haoxuan Huang, Chao Zhu, DQ Cai, Ning Liao · 发表于：International Journal of Surgery · 年份：2024 · DOI：10.1097/js9.0000000000001144 · 被引用次数：3 · 研究领域：Cancer Genomics and Diagnostics、Radiomics and Machine Learning in Medical Imaging、Cancer Immunotherapy and Biomarkers

Background: Lymph node metastasis (LNM) is an independent prognostic factor in numerous types of cancer. Therefore, a LNM-related gene-based nomogram may precisely predict survival and drug sensitivity, and reveal the mechanism underlying LNM. Materials and Methods: Gene sequencing profiles of pan-cancer data (33 cancer types) were acquired from The Cancer Genome Atlas UCSC Xena database. Patients were classified into primary (N = 10,071) and testing (N = 5,036) cohorts. The lymph node score (LNscore) was established via single-cell RNA sequencing, whole-transcriptome sequencing, machine learning, and Cox regression analyses. A novel prognosis model, formulated by incorporating the LNscore and clinical characteristics, was evaluated using the concordance index, calibration curve, and decision curve analysis. Moreover, patients were assigned into high- and low-risk groups according to the median LNscore. We investigated these two groups for survival prognosis, functional enrichment, immune infiltration, and drug sensitivity. In addition, we silenced and overexpressed insulin like growth factor 2 mRNA binding protein 2 (IGF2BP2). We also analyzed the behavior of breast cancer (BRCA) cells regarding lymphatic metastasis and lymphangiogenesis in vitro . IGF2BP2 stimulated the proliferation of BRCA cells via 5-Ethynyl-2’-deoxyuridine and Cell Counting Kit-8 experiments. Results: A LNM-related set of 12 genes was identified and utilized to determine the LNscore. The concordance-ind...