title: Genome-wide analysis of long noncoding RNA turnover.
abstract: Genome-wide analysis for determining RNA turnover is an advanced method in RNA biology that examines the specific half-life of nuclear noncoding RNA (ncRNA). In particular, a pulse-labeling method using uridine analogs enables the determination of RNA stability under physiologically undisturbed conditions. The technique involves pulse labeling of endogenous RNAs in mammalian cells with 5'-bromo-uridine (BrU), followed by measuring the chronological decrease of BrU-labeled RNAs using deep sequencing. The method is called BrU immunoprecipitation chase assay (BRIC) or BRIC through deep sequencing (BRIC-seq). Here, we describe a detailed protocol and technical tips for BRIC-seq.
authors.affiliation: Research Institute for Environmental Management Technology, National Institute of Advanced Industrial Science and Technology (AIST), 1-1-1 Higashi, Tsukuba, Ibaraki, 305-8566, Japan.
authors.forename: Hidenori
authors.initials: H
authors.lastname: Tani
authors.forename: Naoto
authors.initials: N
authors.lastname: Imamachi
authors.forename: Rena
authors.initials: R
authors.lastname: Mizutani
authors.forename: Katsutoshi
authors.initials: K
authors.lastname: Imamura
authors.forename: Yeondae
authors.initials: Y
authors.lastname: Kwon
authors.forename: Satoru
authors.initials: S
authors.lastname: Miyazaki
authors.forename: Sho
authors.initials: S
authors.lastname: Maekawa
authors.forename: Yutaka
authors.initials: Y
authors.lastname: Suzuki
authors.forename: Nobuyoshi
authors.initials: N
authors.lastname: Akimitsu
mesh_terms: D000818:Animals; D001973:Bromodeoxyuridine / Q000737:chemistry; D002460:Cell Line; D019295:Computational Biology / Q000379:methods; D016678:Genome; D057809:HEK293 Cells; D006207:Half-Life; D006367:HeLa Cells; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D008322:Mammals / Q000235:genetics*; D020871:RNA Stability; D062085:RNA, Long Noncoding / Q000737:chemistry* / Q000235:genetics* / Q000302:isolation & purification; D017423:Sequence Analysis, RNA
chemical_list: D062085:RNA, Long Noncoding; D001973:Bromodeoxyuridine