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Identification of natural killer cell associated subtyping and gene signature to predict prognosis and drug sensitivity of lung adenocarcinoma.

作者信息

Zhang Dexin, Zhao Yujie

机构信息

Respiratory Department of the Second Affiliated Hospital of Xi'an Jiaotong University Medical College, Xi'an, China.

Regional Marketing Department, Yuce Biotechnology Co, Ltd., Dabaihui Center, Shenzhen, China.

出版信息

Front Genet. 2023 Apr 7;14:1156230. doi: 10.3389/fgene.2023.1156230. eCollection 2023.


DOI:10.3389/fgene.2023.1156230
PMID:37091780
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10119412/
Abstract

This research explored the immune characteristics of natural killer (NK) cells in lung adenocarcinoma (LUAD) and their predictive role on patient survival and immunotherapy response. Molecular subtyping of LUAD samples was performed by evaluating NK cell-associated pathways and genes in The Cancer Genome Atlas (TCGA) dataset using consistent clustering. 12 programmed cell death (PCD) patterns were acquired from previous study. Riskscore prognostic models were constructed using Least absolute shrinkage and selection operator (Lasso) and Cox regression. The model stability was validated in Gene Expression Omnibus database (GEO). We classified LUAD into three different molecular subgroups based on NK cell-related genes, with the worst prognosis in C1 patients and the optimal in C3. Homologous Recombination Defects, purity and ploidy, TMB, LOH, Aneuploidy Score, were the most high-expressed in C1 and the least expressed in C3. ImmuneScore was the highest in C3 type, suggesting greater immune infiltration in C3 subtype. C1 subtypes had higher TIDE scores, indicating that C1 subtypes may benefit less from immunotherapy. Generally, C3 subtype presented highest PCD patterns scores. With four genes, ANLN, FAM83A, RHOV and PARP15, we constructed a LUAD risk prediction model with significant differences in immune cell composition, cell cycle related pathways between the two risk groups. Samples in C1 and high group were more sensitive to chemotherapy drug. The score of PCD were differences in high- and low-groups. Finally, we combined Riskscore and clinical features to improve the performance of the prediction model, and the calibration curve and decision curve verified that the great robustness of the model. We identified three stable molecular subtypes of LUAD and constructed a prognostic model based on NK cell-related genes, maybe have a greater potential for application in predicting immunotherapy response and patient prognosis.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/09f08d8efee3/fgene-14-1156230-g012.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/59b09a57bc04/fgene-14-1156230-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/91051a337d13/fgene-14-1156230-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/0b54970503b0/fgene-14-1156230-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/341a38f46c68/fgene-14-1156230-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/957dd682575e/fgene-14-1156230-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/6e48116533f9/fgene-14-1156230-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/4e3445b99934/fgene-14-1156230-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/b906da3f37c3/fgene-14-1156230-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/7a015c3969b8/fgene-14-1156230-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/5d2d7b5a504f/fgene-14-1156230-g010.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/0b96a19ee8f8/fgene-14-1156230-g011.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/09f08d8efee3/fgene-14-1156230-g012.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/59b09a57bc04/fgene-14-1156230-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/91051a337d13/fgene-14-1156230-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/0b54970503b0/fgene-14-1156230-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/341a38f46c68/fgene-14-1156230-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/957dd682575e/fgene-14-1156230-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/6e48116533f9/fgene-14-1156230-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/4e3445b99934/fgene-14-1156230-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/b906da3f37c3/fgene-14-1156230-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/7a015c3969b8/fgene-14-1156230-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/5d2d7b5a504f/fgene-14-1156230-g010.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/0b96a19ee8f8/fgene-14-1156230-g011.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0977/10119412/09f08d8efee3/fgene-14-1156230-g012.jpg

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引用本文的文献

[1]
Oxidative stress gene signature construction to identify subtypes and prognosis of patients with lung adenocarcinoma.

Heliyon. 2024-9-24

[2]
Cell components of tumor microenvironment in lung adenocarcinoma: Promising targets for small-molecule compounds.

Chin Med J (Engl). 2025-4-20

[3]
Identification and validation of tryptophan-related gene signatures to predict prognosis and immunotherapy response in lung adenocarcinoma reveals a critical role for PTTG1.

Front Immunol. 2024

[4]
Integrated bulk and single-cell RNA sequencing identifies an aneuploidy-based gene signature to predict sensitivity of lung adenocarcinoma to traditional chemotherapy drugs and patients' prognosis.

PeerJ. 2024

本文引用的文献

[1]
Leveraging diverse cell-death patterns to predict the prognosis and drug sensitivity of triple-negative breast cancer patients after surgery.

Int J Surg. 2022-11

[2]
Effect of autologous NK cell immunotherapy on advanced lung adenocarcinoma with EGFR mutations.

Precis Clin Med. 2019-12

[3]
Harnessing Natural Killer Cells in Non-Small Cell Lung Cancer.

Cells. 2022-2-10

[4]
Cancer statistics, 2022.

CA Cancer J Clin. 2022-1

[5]
ANLN Regulated by miR-30a-5p Mediates Malignant Progression of Lung Adenocarcinoma.

Comput Math Methods Med. 2021

[6]
Identification of a Novel Ferroptosis-Related Gene Prognostic Signature in Bladder Cancer.

Front Oncol. 2021-9-7

[7]
The molecular feature of macrophages in tumor immune microenvironment of glioma patients.

Comput Struct Biotechnol J. 2021-8-14

[8]
RHOV promotes lung adenocarcinoma cell growth and metastasis through JNK/c-Jun pathway.

Int J Biol Sci. 2021

[9]
Adenocarcinoma spectrum lesions of the lung: Detection, pathology and treatment strategies.

Cancer Treat Rev. 2021-9

[10]
GREB1L overexpression correlates with prognosis and immune cell infiltration in lung adenocarcinoma.

Sci Rep. 2021-6-24

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