Screening of Hub Inflammatory Bowel Disease Biomarkers and Identification of Immune-related Functions Based on Basement Membrane Genes

Overview

Journal Eur J Med Res

Publisher Biomed Central

Specialty General Medicine

Date 2023 Jul 22

PMID 37481583

Authors

Penghang Lin

Jin Hua

Zuhong Teng

Chunlin Lin

Songyi Liu

Ruofan He

Hui Chen

Hengxin Yao

Jianxin Ye

Guangwei Zhu

Affiliations

Soon will be listed here.

Abstract

Background: Inflammatory bowel disease (IBD), including Crohn's disease (CD) and ulcerative colitis (UC), is a chronic, inflammatory, and autoimmune disease, but its specific etiology and pathogenesis are still unclear. This study aimed to better discover the causative basement membrane (BM) genes of their subtypes and their associations.

Methods: The differential expression of BM genes between CD and UC was analyzed and validated by downloading relevant datasets from the GEO database. We divided the samples into 3 groups for comparative analysis. Construction of PPI networks, enrichment of differential gene functions, screening of Lasso regression models, validation of ROC curves, nomogram for disease prediction and other analytical methods were used. The immune cell infiltration was further explored by ssGSEA analysis, the immune correlates of hub BM genes were found, and finally, the hub central genes were screened by machine learning.

Results: We obtained 6 candidate hub BM genes related to cellular immune infiltration in the CD and UC groups, respectively, and further screened the central hub genes ADAMTS17 and ADAMTS9 through machine learning. And in the ROC curve models, AUC > 0.7, indicating that this characteristic gene has a more accurate predictive effect on IBD. We also found that the pathogenicity-related BM genes of the CD and UC groups were mainly concentrated in the ADAMTS family (ADAMTS17 and ADAMTS9). Addition there are some differences between the two subtypes, and the central different hub BM genes are SPARC, POSTN, and ADAMTS2.

Conclusions: In the current study, we provided a nomogram model of CD and UC composed of BM genes, identified central hub genes, and clarified the similarities and differences between CD and UC. This will have potential value for preclinical, clinical, and translational guidance and differential research in IBD.

Citing Articles

From inflammation to depression: key biomarkers for IBD-related major depressive disorder.

Hu C, Ge M, Liu Y, Tan W, Zhang Y, Zou M J Transl Med. 2024; 22(1):997.

PMID: 39501335 PMC: 11536793. DOI: 10.1186/s12967-024-05758-8.

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