A diagnostic model based on gene biomarkers for Crohn’s disease

Abstract

Crohn's disease (CD) is a segmental chronic inflammatory bowel disease, which seriously affects the patient's quality of life. The etiology of CD is not yet clear, and there is still a lack of effective treatments. Therefore, in this study, we focus on developing a useful model for early diagnosis and targeted therapy of CD. The expression datasets of CD were collected to filter differentially expressed genes (DEGs) by overlapping "limma" package and "WGCNA" package. Then, functional enrichment analysis and protein-protein interaction (PPI) network analyses were performed. Hub genes were screened with "cytoHubba" plug-in and filtered with LASSO and stepwise regression analyses. The logistic regression model and nomogram were established based on the selected hub genes. The 45 DEGs were identified and the top 30 hub genes were chosen out for further study. Finally, 11 genes were selected to construct the logistic regression model and nomogram. The receiver operating characteristic (ROC) curve shows that the area under the curve (AUC) value was 0.960 in the training dataset and 0.760 in the validation dataset. A 11-gene diagnostic model was constructed with IL1B, CXCL10, CXCL2, LCN2, MMP12, CXCL9, NOS2, GBP5, FPR1, GBP4 and WARS, which may become potential biomarkers for early diagnosis and targeted therapy of CD.

RNA Expression of MMP12 Is Strongly Associated with Inflammatory Bowel Disease and Is Regulated by Metabolic Pathways in RAW 264.7 Macrophages

“…In one scenario, stool MMP12 significantly discriminated pediatric UC and CD patients from healthy individuals [ 22 ]. Similarly, our results, along with previous observations [ 18 , 19 , 27 ], also confirmed the elevated expression of MMP12 in the intestinal mucosa of adult patients with UC and CD. Likewise, we demonstrated that the colonic expression of this metalloproteinase was strongly associated with the activity of the disease and the response to biological therapies.…”

Exploration of the biomarkers of comorbidity of psoriasis with inflammatory bowel disease and their association with immune infiltration

“…IL1B had the highest score in hub genes ranked by MCC method in both psoriasis and IBD in this research, which is consonant with the conclusions expressed by Wu et al 33 IL1B was also the hub gene of CD in the research constructed by da Costa et al 34 An increased IL1B gene expression was detected in affected-skin psoriasis, when compared to control skin and non-affected skin psoriasis (p < 0.001). 34 GO and KEGG enrichment analysis indicated that the co-DEGs of psoriasis and IBD were mainly associated with response to lipopolysaccharide, secretory granule lumen, cytokine activity, and IL-17 signaling pathway.…”

“…IL1B had the highest score in hub genes ranked by MCC method in both psoriasis and IBD in this research, which is consonant with the conclusions expressed by Wu et al. 33 IL1B was also the hub gene of CD in the research constructed by da Costa et al. 34 An increased IL1B gene expression was detected in affected‐skin psoriasis, when compared to control skin and non‐affected skin psoriasis ( p < 0.001).…”