Identification of Key Prognostic Alternative Splicing Events of Costimulatory Molecule-Related Genes in Colon Cancer

  • Authors: Ding H.1, Shi H.2, Chen W.3, Liu Z.4, Yang Z.5, Li X.6, Qiu Z.7, Zhuo H.8
  • Affiliations:
    1. Department of General Surgery, Huadong Hospital Affiliated to Fudan University
    2. Department of General Surgery, No. 971 Hospital of PLA Navy
    3. Department of Oncology, Huangdao District Hospital of Traditional Chinese Medicine
    4. Department of General Surgery, Affiliated Qingdao Hiser Hospital of Qingdao University (Qingdao Hospital of Traditional Chinese Medicine)
    5. The IVD Medical Marketing Department, 3D Medicines Inc.
    6. Department of General Surgery, Qingdao Municipal Hospital
    7. Department of Oncology, Shunde Hospital, Guangzhou University of Chinese Medicine
    8. Department of Gastrointestinal Surgery, Provincial Hospital Affiliated to Shandong First Medical University
  • Issue: Vol 27, No 13 (2024)
  • Pages: 1900-1912
  • Section: Chemistry
  • URL: https://rjeid.com/1386-2073/article/view/645258
  • DOI: https://doi.org/10.2174/0113862073249972231026060301
  • ID: 645258

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Abstract

Objective:This study aimed to explore the key alternative splicing events in costimulatory molecule-related genes in colon cancer and to determine their correlation with prognosis.

Methods:Gene expression RNA-sequencing data, clinical data, and SpliceSeq data of colon cancer were obtained from The Cancer Genome Atlas. Differentially expressed alternative splicing events in genes were identified, Followed by correlation analysis of genes corresponding to differentially expressed alternative splicing events with costimulatory molecule-related genes. Survival analysis was conducted using differentially expressed alternative splicing events in these genes and a prognostic model was constructed. Functional enrichment, proteinprotein interaction network, and splicing factor analyses were performed.

Results:In total, 6504 differentially expressed alternative splicing events in 3949 genes were identified between tumor and normal tissues. Correlation analysis revealed 3499 differentially expressed alternative splicing events in 2168 costimulatory molecule-related genes. Moreover, 328 differentially expressed alternative splicing events in 288 costimulatory molecule-related genes were associated with overall survival. The prognostic models constructed using these showed considerable power in predicting survival. The ubiquitin A-52 residue ribosomal protein fusion product 1 and ribosomal protein S9 were the hub nodes in the protein-protein interaction network. Furthermore, one splicing factor, splicing factor proline and glutamine-rich, was significantly associated with patient prognosis. Four splicing factor-alternative splicing pairs were obtained from four alternative splicing events in three genes: TBC1 domain family member 8 B, complement factor H, and mitochondrial fission 1.

Conclusion:The identified differentially expressed alternative splicing events of costimulatory molecule-related genes may be used to predict patient prognosis and immunotherapy responses in colon cancer.

About the authors

Hao Ding

Department of General Surgery, Huadong Hospital Affiliated to Fudan University

Email: info@benthamscience.net

Huiwen Shi

Department of General Surgery, No. 971 Hospital of PLA Navy

Email: info@benthamscience.net

Weifeng Chen

Department of Oncology, Huangdao District Hospital of Traditional Chinese Medicine

Email: info@benthamscience.net

Zhisheng Liu

Department of General Surgery, Affiliated Qingdao Hiser Hospital of Qingdao University (Qingdao Hospital of Traditional Chinese Medicine)

Email: info@benthamscience.net

Zhi Yang

The IVD Medical Marketing Department, 3D Medicines Inc.

Email: info@benthamscience.net

Xiaochuan Li

Department of General Surgery, Qingdao Municipal Hospital

Email: info@benthamscience.net

Zhichao Qiu

Department of Oncology, Shunde Hospital, Guangzhou University of Chinese Medicine

Author for correspondence.
Email: info@benthamscience.net

Hongqing Zhuo

Department of Gastrointestinal Surgery, Provincial Hospital Affiliated to Shandong First Medical University

Author for correspondence.
Email: info@benthamscience.net

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