Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancer
Cancer immune function and tumor microenvironment are governed by long noncoding RNAs (lncRNAs). Nevertheless, it has yet to be established whether lncRNAs play a role in tumor-associated neutrophils (TANs). Here, a computing framework based on machine learning was used to identify neutrophil-specif...
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| Format: | Article |
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Frontiers Media S.A.
2022-10-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2022.1002699/full |
| _version_ | 1811197389414858752 |
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| author | Zhuoran Tang Qi Wang Peixin Chen Haoyue Guo Jinpeng Shi Yingying Pan Chunyu Li Caicun Zhou |
| author_facet | Zhuoran Tang Qi Wang Peixin Chen Haoyue Guo Jinpeng Shi Yingying Pan Chunyu Li Caicun Zhou |
| author_sort | Zhuoran Tang |
| collection | DOAJ |
| description | Cancer immune function and tumor microenvironment are governed by long noncoding RNAs (lncRNAs). Nevertheless, it has yet to be established whether lncRNAs play a role in tumor-associated neutrophils (TANs). Here, a computing framework based on machine learning was used to identify neutrophil-specific lncRNA with prognostic significance in squamous cell carcinoma and lung adenocarcinoma using univariate Cox regression to comprehensively analyze immune, lncRNA, and clinical characteristics. The risk score was determined using LASSO Cox regression analysis. Meanwhile, we named this risk score as “TANlncSig.” TANlncSig was able to distinguish between better and worse survival outcomes in various patient datasets independently of other clinical variables. Functional assessment of TANlncSig showed it is a marker of myeloid cell infiltration into tumor infiltration and myeloid cells directly or indirectly inhibit the anti-tumor immune response by secreting cytokines, expressing immunosuppressive receptors, and altering metabolic processes. Our findings highlighted the value of TANlncSig in TME as a marker of immune cell infiltration and showed the values of lncRNAs as indicators of immunotherapy. |
| first_indexed | 2024-04-12T01:12:48Z |
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| id | doaj.art-016b5a5511d742a7a73d327713c73182 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-04-12T01:12:48Z |
| publishDate | 2022-10-01 |
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| series | Frontiers in Genetics |
| spelling | doaj.art-016b5a5511d742a7a73d327713c731822022-12-22T03:54:03ZengFrontiers Media S.A.Frontiers in Genetics1664-80212022-10-011310.3389/fgene.2022.10026991002699Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancerZhuoran Tang0Qi Wang1Peixin Chen2Haoyue Guo3Jinpeng Shi4Yingying Pan5Chunyu Li6Caicun Zhou7Tongji University Medical School Cancer Institute, Tongji University, Shanghai, ChinaDepartment of Medical Oncology, Tongji University Affiliated Shanghai Pulmonary Hospital, Tongji University Medical School Cancer Institute, Tongji University, Shanghai, ChinaTongji University Medical School Cancer Institute, Tongji University, Shanghai, ChinaTongji University Medical School Cancer Institute, Tongji University, Shanghai, ChinaTongji University Medical School Cancer Institute, Tongji University, Shanghai, ChinaTongji University Medical School Cancer Institute, Tongji University, Shanghai, ChinaDepartment of Integrated Traditional Chinese and Western Medicine, International Medical School, Tianjin Medical University, Tianjin, ChinaDepartment of Medical Oncology, Tongji University Affiliated Shanghai Pulmonary Hospital, Tongji University Medical School Cancer Institute, Tongji University, Shanghai, ChinaCancer immune function and tumor microenvironment are governed by long noncoding RNAs (lncRNAs). Nevertheless, it has yet to be established whether lncRNAs play a role in tumor-associated neutrophils (TANs). Here, a computing framework based on machine learning was used to identify neutrophil-specific lncRNA with prognostic significance in squamous cell carcinoma and lung adenocarcinoma using univariate Cox regression to comprehensively analyze immune, lncRNA, and clinical characteristics. The risk score was determined using LASSO Cox regression analysis. Meanwhile, we named this risk score as “TANlncSig.” TANlncSig was able to distinguish between better and worse survival outcomes in various patient datasets independently of other clinical variables. Functional assessment of TANlncSig showed it is a marker of myeloid cell infiltration into tumor infiltration and myeloid cells directly or indirectly inhibit the anti-tumor immune response by secreting cytokines, expressing immunosuppressive receptors, and altering metabolic processes. Our findings highlighted the value of TANlncSig in TME as a marker of immune cell infiltration and showed the values of lncRNAs as indicators of immunotherapy.https://www.frontiersin.org/articles/10.3389/fgene.2022.1002699/fullnon-small cell lung cancertumor-associated neutrophilslong noncoding RNAimmunotherapycomputational recognition |
| spellingShingle | Zhuoran Tang Qi Wang Peixin Chen Haoyue Guo Jinpeng Shi Yingying Pan Chunyu Li Caicun Zhou Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancer Frontiers in Genetics non-small cell lung cancer tumor-associated neutrophils long noncoding RNA immunotherapy computational recognition |
| title | Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancer |
| title_full | Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancer |
| title_fullStr | Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancer |
| title_full_unstemmed | Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancer |
| title_short | Computational recognition of LncRNA signatures in tumor-associated neutrophils could have implications for immunotherapy and prognostic outcome of non-small cell lung cancer |
| title_sort | computational recognition of lncrna signatures in tumor associated neutrophils could have implications for immunotherapy and prognostic outcome of non small cell lung cancer |
| topic | non-small cell lung cancer tumor-associated neutrophils long noncoding RNA immunotherapy computational recognition |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2022.1002699/full |
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