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Genome‐wide discovery of gene isoforms expressed in primary smooth muscle cells
Author(s) -
Ro Seungil,
Park Chanjae,
Park Paul J,
Berent Robyn,
Collins Nicholas,
Syn Hannah,
Chin Albert,
Sanders Kenton M
Publication year - 2013
Publication title -
the faseb journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.709
H-Index - 277
eISSN - 1530-6860
pISSN - 0892-6638
DOI - 10.1096/fasebj.27.1_supplement.939.9
Subject(s) - biology , transcriptome , genome , gene , gene isoform , computational biology , genetics , gene family , microbiology and biotechnology , gene expression
Smooth muscle cells (SMC) display remarkable plasticity leading to development of several medical conditions that impair the normal functions of SMC. Given the importance of their pathophysiological roles, SMC have been studied extensively for several decades, which has led to the identification of many SMC‐specific genes. However, a comprehensive expression profile and genetic information of SMC, which is necessary for understanding all functional roles of these cells, remains elusive. In order to achieve this goal, we isolated primary SMC from small intestine and colon of smMHC Cre‐eGFP/+ mice, which labeled all differentiated SMC. By using deep DNA sequencing technology, we obtained the transcriptome of SMC. The transcriptome revealed thousands of new isoforms that were uniquely expressed in SMC. The SMC‐specific isoforms consisted of hundreds of contractile genes, ion channels, and receptors, which implicated their functional roles in contractility. We built a SMC genome browser using the UCSC genome custom track. The genome browser provides a valuable reference for future functional studies of SMC. The database also serves as a reference for conditions in which differentiated SMC are phenotypically changed in pathological processes. This genome‐wide transcriptome analysis brings new insight into the genetic structure, expression profile, and isoforms of each individual gene expressed in SMC.