Machine learning-based identification of tumor-infiltrating immune cell-associated lncRNAs for improving outcomes and immunotherapy responses in patients with low-grade glioma
单位:[1]Cent South Univ, Xiangya Hosp, Dept Neurosurg, Changsha 410008, Hunan, Peoples R China[2]Harbin Med Univ, Coll Bioinformat Sci & Technol, One Third Lab, Harbin, Peoples R China[3]Cent South Univ, Xiangya Hosp, Dept Oncol, Changsha, Peoples R China[4]Univ Manchester, Fac Biol Med & Hlth, Div Neurosci & Expt Psychol, Manchester, Lancs, England[5]Huazhong Univ Sci & Technol, Tongji Med Coll, Dept Thyroid & Breast Surg, Tongji Hosp, Wuhan, Peoples R China外科学系甲状腺乳腺外科华中科技大学同济医学院附属同济医院[6]First Affiliated Hosp Zhengzhou, Dept Intervent Radiol, Zhengzhou, Peoples R China[7]Southern Med Univ, Zhujiang Hosp, Dept Oncol, Guangzhou, Peoples R China南方医科大学珠江医院[8]Cent South Univ, Xiangya Hosp, Natl Clin Res Ctr Geriatr Disorders, Changsha, Peoples R China[9]Chongqing Med Univ, Affiliated Hosp 2, Dept Neurosurg, Chongqing, Peoples R China
Rationale: Accumulating evidence demonstrated that long noncoding RNAs (lncRNAs) involved in the regulation of the immune system and displayed a cell-type-specific pattern in immune cell subsets. Given the vital role of tumor-infiltrating lymphocytes in effective immunotherapy, we explored the tumor-infiltrating immune cell-associated lncRNA (TIIClncRNA) in low-grade glioma (LGG), which has never been uncovered yet. Methods: This study utilized a novel computational framework and 10 machine learning algorithms (101 combinations) to screen out TIIClncRNAs by integratively analyzing the sequencing data of purified immune cells, LGG cell lines, and bulk LGG tissues. Results: The established TIICInc signature based on the 16 most potent TIIClncRNAs could predict outcomes in public datasets and the Xiangya in-house dataset with decent efficiency and showed better performance when compared with 95 published signatures. The TIIClnc signature was strongly correlated to immune characteristics, including microsatellite instability, tumor mutation burden, and interferon gamma, and exhibited a more active immunologic process. Furthermore, the TIIClnc signature predicted superior immunotherapy response in multiple datasets across cancer types. Notably, the positive correlation between the TIIClnc signature and CD8, PD-1, and PD-L1 was verified in the Xiangya in-house dataset. Conclusions: The TIIClnc signature enabled a more precise selection of the LGG population who were potential beneficiaries of immunotherapy.
基金:
National Natural Science Foundation of China [82073893, 82172685, 81873635]; Hunan Provincial Natural Science Foundation of China [2022JJ20095]; Hunan Provincial Health Committee Foundation of China [202204044869]
第一作者单位:[1]Cent South Univ, Xiangya Hosp, Dept Neurosurg, Changsha 410008, Hunan, Peoples R China[2]Harbin Med Univ, Coll Bioinformat Sci & Technol, One Third Lab, Harbin, Peoples R China[8]Cent South Univ, Xiangya Hosp, Natl Clin Res Ctr Geriatr Disorders, Changsha, Peoples R China
通讯作者:
通讯机构:[1]Cent South Univ, Xiangya Hosp, Dept Neurosurg, Changsha 410008, Hunan, Peoples R China[8]Cent South Univ, Xiangya Hosp, Natl Clin Res Ctr Geriatr Disorders, Changsha, Peoples R China
推荐引用方式(GB/T 7714):
Zhang Nan,Zhang Hao,Wu Wantao,et al.Machine learning-based identification of tumor-infiltrating immune cell-associated lncRNAs for improving outcomes and immunotherapy responses in patients with low-grade glioma[J].THERANOSTICS.2022,12(13):5931-5948.doi:10.7150/thno.74281.
APA:
Zhang, Nan,Zhang, Hao,Wu, Wantao,Zhou, Ran,Li, Shuyu...&Cheng, Quan.(2022).Machine learning-based identification of tumor-infiltrating immune cell-associated lncRNAs for improving outcomes and immunotherapy responses in patients with low-grade glioma.THERANOSTICS,12,(13)
MLA:
Zhang, Nan,et al."Machine learning-based identification of tumor-infiltrating immune cell-associated lncRNAs for improving outcomes and immunotherapy responses in patients with low-grade glioma".THERANOSTICS 12..13(2022):5931-5948