Identification of a 24-gene panel and a novel marker of PODXL2 essential for the pathological diagnosis of early prostate cancer

Ma, Xiaoshi1,2; Chen, Lipeng3; Chen, Tao4; Chen, Kun5; Zhang, Huirong3; Huang, Kaipeng6; Zheng, Han7; Jin, Hongtao5; Cheng, Zhiqiang8; Xiao, Kefeng1,2; Guo, Jinan1,2

2023

10.1016/j.csbj.2023.10.044

COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL   影响因子和分区

2001-0370

Precise diagnosis of early prostate cancer (PCa) is critical for preventing tumor progression. However, the diagnostic outcomes of currently used markers are far from satisfactory due to the low sensitivity or specificity. Here, we identified a diagnostic subpopulation in PCa tissue with the integrating analysis of single-cell and bulk RNA-seq. The representative markers of this subpopulation were extracted to perform intersection analysis with early-PCa-related gene module generated from weighted correlation network analysis (WGCNA). A total of 24 overlapping genes were obtained, the diagnostic roles of which were validated by distinguishing normal and tumorous prostate samples from the public dataset. A least absolute shrinkage and selection operator (LASSO) model was constructed based on these genes and the obtained 24-gene panel showed high sensitivity and specificity for PCa diagnosis, with better identifying capability of PCa than the commercially used gene panel of Oncotype DX. The top two risk factors, TRPM4 and PODXL2 , were verified to be highly expressed in early PCa tissues by multiplex immunostaining, and PODXL2 was more sensitive and specific compared to TRPM4 and the pathologically used marker AMACR for early PCa diagnosis, suggesting a novel and promising pathology marker.

Prostate cancer Single-cell and bulk RNA-seq Early diagnosis 24-gene panel PODXL2 TRPM4

SCI ; EI

英语

通讯

Guangdong Basic and Applied Basic Research Foundation[2021A1515111144] ; Shenzhen Science and Technology Program["JCYJ20220530152405011","SYWGSLCYJ202302"] ; Shenzhen People's Hospital Physician Scientist Training "Five Three" Program[SYWGSLCYJ20230]

Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology

Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology

WOS:001111421800001

ELSEVIER

20234615044836

Diagnosis ; Diseases ; Regression analysis ; RNA ; Tissue ; Urology

Biological Materials and Tissue Engineering:461.2 ; Medicine and Pharmacology:461.6 ; Mathematical Statistics:922.2

Web of Science

1.Jinan Univ, Shenzhen Peoples Hosp, Dept Urol, Clin Med Coll 2, Shenzhen 518020, Guangdong, Peoples R China
2.Jinan Univ, Shenzhen Peoples Hosp, Clin Res Ctr Geriatrt, Clin Med Coll 2, Shenzhen 518020, Guangdong, Peoples R China
3.Jinan Univ, Shenzhen Peoples Hosp, Clin Med Coll 2, Clin Med Res Ctr, Shenzhen 518020, Guangdong, Peoples R China
4.Southern Univ Sci & Technol, Sch Med, Shenzhen 518055, Guangdong, Peoples R China
5.Nanjing Med Univ, Dept Radiotherapy, Sch Clin Med 4, Nanjing 210000, Jiangsu, Peoples R China
6.Jinan Univ, Shenzhen Peoples Hosp, Dept Pathol, Clin Med Coll 2, Shenzhen 518020, Guangdong, Peoples R China
7.Yijishan Hosp, Wannan Med Coll, Dept Urol, Affiliated Hosp 1, Wuhu 241000, Anhui, Peoples R China
8.Southern Univ Sci & Technol, Peoples Hosp Shenzhen 3, Dept Pathol, Affiliated Hosp 2, Shenzhen 518100, Guangdong, Peoples R China

Ma, Xiaoshi,Chen, Lipeng,Chen, Tao,et al. Identification of a 24-gene panel and a novel marker of PODXL2 essential for the pathological diagnosis of early prostate cancer[J]. COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL,2023,21:5476-5490.

Ma, Xiaoshi.,Chen, Lipeng.,Chen, Tao.,Chen, Kun.,Zhang, Huirong.,...&Guo, Jinan.(2023).Identification of a 24-gene panel and a novel marker of PODXL2 essential for the pathological diagnosis of early prostate cancer.COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL,21,5476-5490.

Ma, Xiaoshi,et al."Identification of a 24-gene panel and a novel marker of PODXL2 essential for the pathological diagnosis of early prostate cancer".COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL 21(2023):5476-5490.