Identification of esophageal cancer pathway deviation and construction of a diagnosis model using three kernel genes.
Journal:
Journal of cellular physiology
PMID:
30835828
Abstract
The purpose of this study is to better understand the role of interleukin 35 (IL35) in esophageal carcinoma by comparing the mRNA level in Barrett's esophageal mucosa and in matched normal squamous mucosa and to understand how the diagnosis model works with two other genes: hepatocyte nuclear factor 1B (HNF1B) and cAMP responsive element binding protein 3-like 1 (CREB3L1). By comparing carcinoma tissue and normal tissue samples, we extracted all the differentially expressed mRNAs. The bioinformatics analysis resulted in the discovery of three prominent genes. Eventually, the three genes were utilized to train a deep-learning model. An additional wet experiment was conducted to validate the effect of IL35. All the differentially expressed genes were enriched into nine groups, each of which has specific biological functions. Given that the three significant genes HNF1B, CREB3L1, and IL35 as diagnostic features, a deep-learning model was constructed, reaching an accuracy of 93% in the training set and 87% in the test set. Our findings suggest that IL35, along with the other two signatures, can distinguish esophageal tumor samples from normal samples precisely.
Authors
Keywords
Biomarkers, Tumor
Case-Control Studies
Cyclic AMP Response Element-Binding Protein
Databases, Genetic
Deep Learning
Early Detection of Cancer
Esophageal Neoplasms
Esophageal Squamous Cell Carcinoma
Gene Expression Profiling
Gene Expression Regulation, Neoplastic
Hepatocyte Nuclear Factor 1-beta
Humans
Interleukin-12 Subunit p35
Models, Genetic
Nerve Tissue Proteins
Predictive Value of Tests
Reproducibility of Results
Transcriptome