Discovery and Validation of Barrett's Esophagus MicroRNA Transcriptome by Next Generation Sequencing
- Bansal Ajay
- Lee In-Hee
- Hong Xiaoman
- Mathur Sharad C.
- Tawfik Ossama
- Rastogi Amit
- Buttar Navtej
- Visvanathan Mahesh
- Sharma Prateek
- Christenson Lane K.
DOIAbstract
Barrett's esophagus (BE) is transition from squamous to columnar mucosa as a result of gastroesophageal reflux disease (GERD). The role of microRNA during this transition has not been systematically studied.For initial screening, total RNA from 5 GERD and 6 BE patients was size fractionated. RNA <70 nucleotides was subjected to SOLiD 3 library preparation and next generation sequencing (NGS). Bioinformatics analysis was performed using R package “DEseq”. A p value<0.05 adjusted for a false discovery rate of 5% was considered significant. NGS-identified miRNA were validated using qRT-PCR in an independent group of 40 GERD and 27 BE patients. MicroRNA expression of human BE tissues was also compared with three BE cell lines.NGS detected 19.6 ...
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