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©The Author(s) 2023.
World J Gastroenterol. Sep 28, 2023; 29(36): 5211-5225
Published online Sep 28, 2023. doi: 10.3748/wjg.v29.i36.5211
Published online Sep 28, 2023. doi: 10.3748/wjg.v29.i36.5211
No. | Ref. | Type of study | Number of participants | Type of omics utilized | Results |
1 | Lloyd-Price et al[75] | Cohort study | 132 IBD | Microbiome; genome; metagenome; meta; transcriptome; metabolome profiles; proteome | Found functional dysbiosis in the gut microbiome, changes in metabolite pools, and increased levels of antibodies in serum during periods of inflammatory bowel disease activity |
2 | Mills et al[83] | Cohort study | -40 UC, -validation cohort: 73 UC, 117 CD, 20 controls | Proteome; metaproteome; metabolome; metagenome; meta peptidome | UC patients with active disease had increased protease activity that originated from the bacterium Bacteroides vulgatus |
3 | Zhang et al[84] | Cohort study | 25 CD, 22 UC, 24 controls | Metaproteome; microbiome | Identified functional alterations of microbiome and associated microbial proteins in the intestinal mucosa in new-onset pediatric IBD patients which contributed to abnormal host-microbiota interactions |
4 | Lee et al[74] | Prospective study | 108 CD, 77 UC | Metabolome; microbiome; metagenome; proteome | Microbial, metagenomic diversity and metabolomics (serum secondary bile acid concentrations) predicted response in moderate-to-severe Crohn’s disease or ulcerative colitis patients initiating anti-cytokine therapy (anti-TNF or -IL12/23) or anti-integrin therapy |
5 | Dai et al[85] | Prospective study | 5956 CD, 21770 controls | Genome; epigenome; transcriptome | Identified strongly associated CD genes involved in immune response, MHC class II receptor activity, and immunological disorders. Involvement of constitutive photomorphogenesis 9 signalosome in CD pathogenesis. Interactions among CD genes with CD drug target genes |
6 | Suskind et al[86] | Randomized controlled trial | 10 CD | Microbiome; metagenome; metaproteome; metabolome | Diet had a positive effect on CD patient symptoms and inflammation; Specific exclusionary diets were associated with a better resolution of inflammation |
7 | Borren et al[87] | Cohort study | 108 CD, 56 UC | Proteome; metabolome; microbiome | Identified proteomic, metabolomic, and microbiome biomarkers that characterized a proinflammatory state in quiescent IBD patients and predicted clinical relapse |
8 | Liu et al[88] | Prospective study | 42 UC, 11 controls | Metabonome; microbiome | Identified that the combination of Verrucomicrobiota, butyric acid, and isobutyric acid improved the prediction of early remission to anti-integrin therapy |
9 | Huang et al[89] | Cohort study | 140 CD, 73 UC, 86 controls | Metagenome; meta transcriptome; proteome; metabolome; virome; microbiome | Established artificial intelligence models that can subtype IBD with high accuracy using simple noninvasive fecal biomarkers and avoiding invasive procedures |
10 | Mishra et al[60] | Cohort study | 37 IBD | Genome; epigenome | Identified biomarkers of early shifts in gene expression and DNA methylation for early prediction of anti-TNF treatment success |
11 | Gonzalez et al[90] | Cohort study | 200 IBD | Microbiome; metabolome; metaproteome; metagenome | Identified colonic- and ileal-isolated CD subtypes had different pathologies. Colonic CD was similar to ulcerative colitis with neutrophil and Bacteroides vulgatus involvement while Ileal-isolated CD had a bile acid-driven profile |
12 | Xu et al[91] | Cohort study | Discovery: 6 datasets, Validation: 46 CD, 44 controls | Genome; transcriptome; Epigenome; microbiome | Identified that CD onset results from a number of oxidative stress genes through DNA methylation, gene expression, and host-microbiota interactions |
13 | Gao et al[92] | Cohort study | 30 CD, 5 controls | Proteome; microbiome; metagenome | Identified alterations in proteins, microbiome, and metabolic processes across multi-tissues in CD patients that are imprinted in serum and fecal samples as potential diagnostic biomarkers, allowing a non-invasive precision diagnosis |
14 | Baran et al[93] | Cohort study | 18 IBD | Epigenome; transcriptome; genome | Therapeutic response causes transcriptional changes in the mucosa and early changes in gene expression in peripheral blood that are regulated epigenetically |
- Citation: Jagirdhar GSK, Perez JA, Perez AB, Surani S. Integration and implementation of precision medicine in the multifaceted inflammatory bowel disease. World J Gastroenterol 2023; 29(36): 5211-5225
- URL: https://www.wjgnet.com/1007-9327/full/v29/i36/5211.htm
- DOI: https://dx.doi.org/10.3748/wjg.v29.i36.5211