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Proteogenomic analysis reveals non-small cell lung cancer subtypes predicting chromosome instability, and tumor microenvironment

Author

Listed:
  • Kyu Jin Song

    (Kyung Hee University
    Kyung Hee University)

  • Seunghyuk Choi

    (Hanyang University)

  • Kwoneel Kim

    (Kyung Hee University
    Kyung Hee University)

  • Hee Sang Hwang

    (University of Ulsan College of Medicine, Asan Medical Center)

  • Eunhyong Chang

    (Korea University
    Korea University)

  • Ji Soo Park

    (Kyung Hee University)

  • Seok Bo Shim

    (Kyung Hee University)

  • Seunghwan Choi

    (Korea University)

  • Yong Jin Heo

    (Korea University)

  • Woo Ju An

    (Kyung Hee University
    Kyung Hee University)

  • Dae Yeol Yang

    (Kyung Hee University)

  • Kyung-Cho Cho

    (Kyung Hee University
    Kyung Hee University)

  • Wonjun Ji

    (Asan Medical Center, University of Ulsan College of Medicine)

  • Chang-Min Choi

    (Asan Medical Center, University of Ulsan College of Medicine
    Asan Medical Center, University of Ulsan College of Medicine)

  • Jae Cheol Lee

    (Asan Medical Center, University of Ulsan College of Medicine)

  • Hyeong-ryul Kim

    (University of Ulsan College of Medicine)

  • Jiyoung Yoo

    (University of Ulsan Asan Medical Center)

  • Hee-Sung Ahn

    (University of Ulsan Asan Medical Center)

  • Gang-Hee Lee

    (Korea University
    Korea University)

  • Chanwoong Hwa

    (Korea University
    Korea University)

  • Seoyeon Kim

    (Korea University
    Korea University)

  • Kyunggon Kim

    (University of Ulsan Asan Medical Center
    Asan Institute for Life Sciences
    Asan Medical Center)

  • Min-Sik Kim

    (DGIST
    DGIST
    DGIST)

  • Eunok Paek

    (Hanyang University
    Hanyang University
    Hanyang University)

  • Seungjin Na

    (Hanyang University
    Korea Basic Science Institute)

  • Se Jin Jang

    (University of Ulsan College of Medicine, Asan Medical Center
    Songpa-gu)

  • Joon-Yong An

    (Korea University
    Korea University
    Korea University)

  • Kwang Pyo Kim

    (Kyung Hee University
    Kyung Hee University)

Abstract

Non-small cell lung cancer (NSCLC) is histologically classified into lung adenocarcinoma (LUAD) and lung squamous cell carcinoma (LSCC). However, some tumors are histologically ambiguous and other pathophysiological features or microenvironmental factors may be more prominent. Here we report integrative multiomics analyses using data for 229 patients from a Korean NSCLC cohort and 462 patients from previous multiomics studies. Histological examination reveals five molecular subtypes, one of which is a NSCLC subtype with PI3K-Akt pathway upregulation, showing a high proportion of metastasis and poor survival outcomes regardless of any specific NSCLC histology. Proliferative subtypes are present in LUAD and LSCC, which show strong associations with whole genome doubling (WGD) events. Comprehensive characterization of the immune microenvironment reveals various immune cell compositions and neoantigen loads across molecular subtypes, which predicting different prognoses. Immunological subtypes exhibit a hot tumor-enriched state and a higher efficacy of adjuvant therapy.

Suggested Citation

  • Kyu Jin Song & Seunghyuk Choi & Kwoneel Kim & Hee Sang Hwang & Eunhyong Chang & Ji Soo Park & Seok Bo Shim & Seunghwan Choi & Yong Jin Heo & Woo Ju An & Dae Yeol Yang & Kyung-Cho Cho & Wonjun Ji & Cha, 2024. "Proteogenomic analysis reveals non-small cell lung cancer subtypes predicting chromosome instability, and tumor microenvironment," Nature Communications, Nature, vol. 15(1), pages 1-25, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-54434-4
    DOI: 10.1038/s41467-024-54434-4
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