In:
PLOS ONE, Public Library of Science (PLoS), Vol. 17, No. 4 ( 2022-4-29), p. e0267973-
Abstract:
Adenomatous polyps of the colon are the most common neoplastic polyps. Although most of adenomatous polyps do not show malign transformation, majority of colorectal carcinomas originate from neoplastic polyps. Therefore, understanding of this transformation process would help in both preventive therapies and evaluation of malignancy risks. This study uncovers alterations in gene expressions as potential biomarkers that are revealed by integration of several network-based approaches. In silico analysis performed on a unified microarray cohort, which is covering 150 normal colon and adenomatous polyp samples. Significant gene modules were obtained by a weighted gene co-expression network analysis. Gene modules with similar profiles were mapped to a colon tissue specific functional interaction network. Several clustering algorithms run on the colon-specific network and the most significant sub-modules between the clusters were identified. The biomarkers were selected by filtering differentially expressed genes which also involve in significant biological processes and pathways. Biomarkers were also validated on two independent datasets based on their differential gene expressions. To the best of our knowledge, such a cascaded network analysis pipeline was implemented for the first time on a large collection of normal colon and polyp samples. We identified significant increases in TLR4 and MSX1 expressions as well as decrease in chemokine profiles with mostly pro-tumoral activities. These biomarkers might appear as both preventive targets and biomarkers for risk evaluation. As a result, this research proposes novel molecular markers that might be alternative to endoscopic approaches for diagnosis of adenomatous polyps.
Type of Medium:
Online Resource
ISSN:
1932-6203
DOI:
10.1371/journal.pone.0267973
DOI:
10.1371/journal.pone.0267973.g001
DOI:
10.1371/journal.pone.0267973.g002
DOI:
10.1371/journal.pone.0267973.g003
DOI:
10.1371/journal.pone.0267973.g004
DOI:
10.1371/journal.pone.0267973.g005
DOI:
10.1371/journal.pone.0267973.t001
DOI:
10.1371/journal.pone.0267973.t002
DOI:
10.1371/journal.pone.0267973.t003
DOI:
10.1371/journal.pone.0267973.t004
DOI:
10.1371/journal.pone.0267973.t005
DOI:
10.1371/journal.pone.0267973.s001
DOI:
10.1371/journal.pone.0267973.s002
DOI:
10.1371/journal.pone.0267973.s003
DOI:
10.1371/journal.pone.0267973.s004
Language:
English
Publisher:
Public Library of Science (PLoS)
Publication Date:
2022
detail.hit.zdb_id:
2267670-3
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